ENAapplication/xmlftp.sra.ebi.ac.uk/vol1/fastq/SRR127/095/SRR12764895/SRR12764895.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR127/098/SRR12764898/SRR12764898.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR127/096/SRR12764896/SRR12764896.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR127/097/SRR12764897/SRR12764897.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR127/094/SRR12764894/SRR12764894.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR127/093/SRR12764893/SRR12764893.fastq.gzprimaryOK200GenomicsFrank J. Slack, Pathology, BIDMC/Harvard Medical Schoolhttps://www.ebi.ac.uk/ena/browser/view/PRJNA667057Homo sapiensPurpose: To characterize genome-wide microRNA (miRNA) expression profiles in the context of Kaposi’s sarcoma-associated herpesvirus (KSHV)-induced oncogenesis using isogenic cell lines for a Kaposi's sarcoma (KS) xenograft model: KSHV-infected human endothelial cells (LTC) that form tumors with properties closely resembling KS lesions in nude mice and uninfected parental (TIVE) cells. Methods: miRNA expression profiles of LTC and TIVE cells were generated by deep sequencing using Illumina HiSeq 2500. The mappable reads were aligned to the human genome and miRBase using Bowtie. Results: We show, through global cellular miRNA transcriptome analysis, that KSHV infection has a profound impact on the host miRNA expression landscape, up-regulating multiple miRNAs with oncogenic roles while down-regulating many tumor suppressive miRNAs, thereby contributing to KS oncogenesis. In particular, we identify miR-127-3p as one of the most significantly down-regulated miRNAs in LTC and restoring this miRNA inhibits KSHV-induced transformation, proliferation and tumorigenesis. Conclusions: This study provides a detailed analysis of the cellular miRNA transcriptome in LTC and TIVE cells using small RNA sequencing technology. We identify significant dysregulation of cellular miRNAs with important oncogenic or tumor-suppressive functions that may be physiologically relevant to KSHV oncogenesis. Moreover, our results identify a previously unrecognized tumor suppressor function for miR-127-3p in KS, indicating that its restoration offers potential as a therapeutic intervention for KS. Overall design: miRNA expression profiles of LTC and TIVE cells were generated by deep sequencing using Illumina HiSeq 2500.ENAKaposi's sarcoma of esophagus, Kaposi's sarcoma of heart, prostate Kaposi's sarcoma, d230, RNA Sequence Determination, determination, Sequence Determination, cutaneous Kaposi's sarcoma, RNA Sequence, dTAFII250, broad, intestinal Kaposi's sarcoma, Kaposi Sarcoma-Associated Herpes Virus, EfW1, Kaposi's sarcoma-associated herpes-like virus, palate Kaposi's sarcoma, ter, Kaposi's sarcoma of cornea, Kaposi's sarcoma of soft tissue, dmTAF[[II]]230, Kaposi's sarcoma of anus, reduced, multiple hemorrhagic sarcoma, dmTAF1, Kaposi's sarcoma of oesophagus, Taf230, Kaposi's sarcoma of the prostate, lung, Kaposi's sarcoma of skin, tiny, Analysis, Kaposi's sarcoma of conjunctiva, gastric Kaposi's sarcoma, esophageal Kaposi's sarcoma, TAF250, Taf200, dTAF[[II]]250, skin, TFIID TAF250, Genomes, Analyses, Determination, Kaposi's sarcoma of palate, cel, cell, Kaposi's sarcoma of the gallbladder, long, hypoplasia, Mediterranean Kaposi sarcoma, KSHV, Taf1p, Kaposi Sarcoma Herpes Virus, Kaposi's sarcoma of the CNS, Sequence Determinations, Sequencing, Kaposi's sarcoma-associated herpesvirus (KSHV), penis Kaposi's sarcoma, dTAF250, miRNA-HTS, DmelCG4216, Human herpesvirus 8 type P, KS, RNA Sequence Analyses, Bsg75C, microRNA-seq assay., Human Herpesvirus 8 infection, Kaposi sarcoma-associated herpesvirus, RNA Sequencing, Kaposi's sarcoma-associated herpesvirus, Kaposi's sarcoma-associated herpesvirus KSHV, TAF, HHV8 infection, Kaposi's sarcoma (disease), Sequence Analyses, small, HHV8, RNA, dTAF[[II]]230, TAF[[II]]250, Virus-HHV8, wide/broad, RNA Sequence Determinations, TAF200, l(3)84Ab, cardiac Kaposi's sarcoma, BG:DS00004.13, HHV-8, TAFII-250, Human Herpes Virus 8 infection, TAF250/230, Karposi's sarcoma-associated herpes-like virus, Cell, Determinations, Kaposi's sarcoma of gastrointestinal sites, dTAF230, TAFII250, microRNA-seq, Kaposi's sarcoma of lung, Term, p230, chemical analysis, human herpesvirus 8, Kaposi's sarcoma-associated human herpes virus, TAF[[II]]250/230, TFIID, Taf[[II]]250, conjunctival Kaposi's sarcoma, TAF[[II]]230, Kaposi's sarcoma-associated herpesvirus - Human herpesvirus 8, underdeveloped, lymphadenopathic Kaposi's sarcoma, pulmonary Kaposi's sarcoma, non AIDS related Kaposi sarcoma, soft tissue Kaposi's sarcoma, Kaposi's sarcoma of soft tissues, Kaposi's sarcoma of penis, Kaposi sarcoma, CG4216, TAF[II]250, central nervous system Kaposi's sarcoma, CG17603, Kaposi's sarcoma of central nervous system, TAF[[II]], Kaposi's sarcoma of lymph nodes, anal Kaposi's sarcoma, lymph node Kaposi's sarcoma, wide, DmelCG17603, human herpesvirus 8 infection, Taf250, SR3-5, corneal Kaposi's sarcoma, RNA Sequence Analysis, gallbladder Kaposi's sarcoma, Human Herpes Virus 8 Infection, assay, Kaposi's sarcoma, miRNA-seq, Kaposi sarcoma herpesvirus, TAF230, African lymphadenopathic Kaposi's sarcoma, TAF1Kaposi's sarcoma of esophagus, Kaposi's sarcoma of heart, prostate Kaposi's sarcoma, d230, RNA Sequence Determination, determination, Sequence Determination, cutaneous Kaposi's sarcoma, RNA Sequence, dTAFII250, broad, intestinal Kaposi's sarcoma, Kaposi Sarcoma-Associated Herpes Virus, EfW1, Kaposi's sarcoma-associated herpes-like virus, palate Kaposi's sarcoma, ter, Kaposi's sarcoma of cornea, Kaposi's sarcoma of soft tissue, dmTAF[[II]]230, Kaposi's sarcoma of anus, reduced, multiple hemorrhagic sarcoma, dmTAF1, Kaposi's sarcoma of oesophagus, Taf230, Kaposi's sarcoma of the prostate, lung, Kaposi's sarcoma of skin, tiny, Analysis, Kaposi's sarcoma of conjunctiva, gastric Kaposi's sarcoma, esophageal Kaposi's sarcoma, TAF250, Taf200, dTAF[[II]]250, skin, TFIID TAF250, Genomes, Analyses, Determination, Kaposi's sarcoma of palate, cel, cell, Kaposi's sarcoma of the gallbladder, long, hypoplasia, Mediterranean Kaposi sarcoma, KSHV, Taf1p, Kaposi Sarcoma Herpes Virus, Kaposi's sarcoma of the CNS, Sequence Determinations, Sequencing, Kaposi's sarcoma-associated herpesvirus (KSHV), penis Kaposi's sarcoma, dTAF250, miRNA-HTS, DmelCG4216, Human herpesvirus 8 type P, KS, RNA Sequence Analyses, Bsg75C, microRNA-seq assay., Human Herpesvirus 8 infection, Kaposi sarcoma-associated herpesvirus, RNA Sequencing, Kaposi's sarcoma-associated herpesvirus, Kaposi's sarcoma-associated herpesvirus KSHV, TAF, HHV8 infection, Kaposi's sarcoma (disease), Sequence Analyses, small, HHV8, RNA, dTAF[[II]]230, TAF[[II]]250, Virus-HHV8, wide/broad, RNA Sequence Determinations, TAF200, l(3)84Ab, cardiac Kaposi's sarcoma, BG:DS00004.13, HHV-8, TAFII-250, Human Herpes Virus 8 infection, TAF250/230, Karposi's sarcoma-associated herpes-like virus, Cell, Determinations, Kaposi's sarcoma of gastrointestinal sites, dTAF230, TAFII250, microRNA-seq, Kaposi's sarcoma of lung, Term, p230, chemical analysis, human herpesvirus 8, Kaposi's sarcoma-associated human herpes virus, TAF[[II]]250/230, TFIID, Taf[[II]]250, conjunctival Kaposi's sarcoma, TAF[[II]]230, Kaposi's sarcoma-associated herpesvirus - Human herpesvirus 8, underdeveloped, lymphadenopathic Kaposi's sarcoma, pulmonary Kaposi's sarcoma, non AIDS related Kaposi sarcoma, soft tissue Kaposi's sarcoma, Kaposi's sarcoma of soft tissues, Kaposi's sarcoma of penis, Kaposi sarcoma, CG4216, TAF[II]250, central nervous system Kaposi's sarcoma, CG17603, Kaposi's sarcoma of central nervous system, TAF[[II]], Kaposi's sarcoma of lymph nodes, anal Kaposi's sarcoma, lymph node Kaposi's sarcoma, wide, DmelCG17603, human herpesvirus 8 infection, Taf250, SR3-5, corneal Kaposi's sarcoma, RNA Sequence Analysis, gallbladder Kaposi's sarcoma, Human Herpes Virus 8 Infection, assay, Kaposi's sarcoma, miRNA-seq, Kaposi sarcoma herpesvirus, TAF230, African lymphadenopathic Kaposi's sarcoma, TAF10.00.00.00.00.0falseGenome-wide small RNA sequencing analysis of KSHV long-term-infected endothelial (LTC) and parental uninfected TIVE cells [miRNA-seq]Genome-wide small RNA sequencing analysis of KSHV long-term-infected endothelial (LTC) and parental uninfected TIVE cells [miRNA-seq]2022-06-102021-11-03PRJNA667057GSE158936347251529606