{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,30]],"date-time":"2026-10-30T06:06:28Z","timestamp":1793340388296,"version":"4.5.0"},"update-to":[{"DOI":"10.1371\/journal.ppat.1007441","type":"new_version","label":"New version","source":"publisher","updated":{"date-parts":[[2018,12,31]],"date-time":"2018-12-31T00:00:00Z","timestamp":1546214400000}}],"reference-count":69,"publisher":"Public Library of Science (PLoS)","issue":"12","license":[{"start":{"date-parts":[[2018,12,17]],"date-time":"2018-12-17T00:00:00Z","timestamp":1545004800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000072","name":"National Institute of Dental and Craniofacial Research","doi-asserted-by":"publisher","award":["DE021954"],"award-info":[{"award-number":["DE021954"]}],"id":[{"id":"10.13039\/100000072","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000060","name":"National Institute of Allergy and Infectious Diseases","doi-asserted-by":"publisher","award":["AI027757"],"award-info":[{"award-number":["AI027757"]}],"id":[{"id":"10.13039\/100000060","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000054","name":"National Cancer Institute","doi-asserted-by":"publisher","award":["ca138165"],"award-info":[{"award-number":["ca138165"]}],"id":[{"id":"10.13039\/100000054","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000054","name":"National Cancer Institute","doi-asserted-by":"publisher","award":["ca190146"],"award-info":[{"award-number":["ca190146"]}],"id":[{"id":"10.13039\/100000054","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["www.plospathogens.org"],"crossmark-restriction":false},"short-container-title":["PLoS Pathog"],"DOI":"10.1371\/journal.ppat.1007441","type":"journal-article","created":{"date-parts":[[2018,12,17]],"date-time":"2018-12-17T19:32:45Z","timestamp":1545075165000},"page":"e1007441","update-policy":"https:\/\/doi.org\/10.1371\/journal.ppat.corrections_policy","source":"Crossref","is-referenced-by-count":40,"title":["Quantitative RNAseq analysis of Ugandan KS tumors reveals KSHV gene expression dominated by transcription from the LTd downstream latency promoter"],"prefix":"10.1371","volume":"14","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-7646-0028","authenticated-orcid":true,"given":"Timothy M.","family":"Rose","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8025-0485","authenticated-orcid":true,"given":"A. Gregory","family":"Bruce","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Serge","family":"Barcy","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Matt","family":"Fitzgibbon","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lisa R.","family":"Matsumoto","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3379-0881","authenticated-orcid":true,"given":"Minako","family":"Ikoma","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3609-661X","authenticated-orcid":true,"given":"Corey","family":"Casper","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jackson","family":"Orem","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Warren","family":"Phipps","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"340","published-online":{"date-parts":[[2018,12,17]]},"reference":[{"issue":"1732","key":"ref1","doi-asserted-by":"crossref","DOI":"10.1098\/rstb.2016.0275","article-title":"Kaposi sarcoma herpesvirus pathogenesis","volume":"372","author":"G Mariggio","year":"2017","journal-title":"Philosophical transactions of the Royal Society of London Series B, Biological sciences"},{"issue":"25","key":"ref2","doi-asserted-by":"crossref","first-page":"14862","DOI":"10.1073\/pnas.93.25.14862","article-title":"Nucleotide sequence of the Kaposi sarcoma-associated herpesvirus (HHV8)","volume":"93","author":"JJ Russo","year":"1996","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"23","key":"ref3","doi-asserted-by":"crossref","first-page":"79","DOI":"10.1093\/oxfordjournals.jncimonographs.a024179","article-title":"Novel organizational features, captured cellular genes, and strain variability within the genome of KSHV\/HHV8","author":"J Nicholas","year":"1998","journal-title":"J Natl Cancer Inst Monogr"},{"issue":"11","key":"ref4","doi-asserted-by":"crossref","first-page":"6474","DOI":"10.1128\/JVI.77.11.6474-6481.2003","article-title":"Host range of Kaposi\u2019s sarcoma-associated herpesvirus in cultured cells","volume":"77","author":"JT Bechtel","year":"2003","journal-title":"J Virol"},{"issue":"10","key":"ref5","doi-asserted-by":"crossref","first-page":"2606","DOI":"10.1172\/JCI119804","article-title":"Identification of the gene encoding the major latency-associated nuclear antigen of the Kaposi\u2019s sarcoma-associated herpesvirus","volume":"100","author":"DH Kedes","year":"1997","journal-title":"The Journal of clinical investigation"},{"issue":"10","key":"ref6","doi-asserted-by":"crossref","first-page":"8309","DOI":"10.1128\/JVI.72.10.8309-8315.1998","article-title":"A cluster of latently expressed genes in Kaposi\u2019s sarcoma-associated herpesvirus","volume":"72","author":"D Dittmer","year":"1998","journal-title":"J Virol"},{"issue":"1","key":"ref7","first-page":"19","article-title":"Identification of a major latent nuclear antigen, LNA-1, in the human herpesvirus 8 genome","volume":"1","author":"P Kellam","year":"1997","journal-title":"Journal of human virology"},{"issue":"1","key":"ref8","doi-asserted-by":"crossref","first-page":"84","DOI":"10.1006\/viro.1999.9672","article-title":"Transcriptional analysis of human herpesvirus-8 open reading frames 71, 72, 73, K14, and 74 in a primary effusion lymphoma cell line","volume":"257","author":"SJ Talbot","year":"1999","journal-title":"Virology"},{"issue":"12","key":"ref9","doi-asserted-by":"crossref","first-page":"5614","DOI":"10.1128\/JVI.75.12.5614-5626.2001","article-title":"Spindle cell conversion by Kaposi\u2019s sarcoma-associated herpesvirus: formation of colonies and plaques with mixed lytic and latent gene expression in infected primary dermal microvascular endothelial cell cultures","volume":"75","author":"DM Ciufo","year":"2001","journal-title":"J Virol"},{"issue":"21","key":"ref10","doi-asserted-by":"crossref","first-page":"10187","DOI":"10.1128\/JVI.74.21.10187-10193.2000","article-title":"A new primary effusion lymphoma-derived cell line yields a highly infectious Kaposi\u2019s sarcoma herpesvirus-containing supernatant","volume":"74","author":"JS Cannon","year":"2000","journal-title":"J Virol"},{"issue":"5","key":"ref11","doi-asserted-by":"crossref","first-page":"2440","DOI":"10.1128\/jvi.76.5.2440-2448.2002","article-title":"De novo infection and serial transmission of Kaposi\u2019s sarcoma-associated herpesvirus in cultured endothelial cells","volume":"76","author":"M Lagunoff","year":"2002","journal-title":"J Virol"},{"issue":"3","key":"ref12","doi-asserted-by":"crossref","first-page":"342","DOI":"10.1038\/nm0396-342","article-title":"Lytic growth of Kaposi\u2019s sarcoma-associated herpesvirus (human herpesvirus 8) in culture","volume":"2","author":"R Renne","year":"1996","journal-title":"Nature medicine"},{"issue":"13","key":"ref13","doi-asserted-by":"crossref","first-page":"6641","DOI":"10.1073\/pnas.93.13.6641","article-title":"Restricted expression of Kaposi sarcoma-associated herpesvirus (human herpesvirus 8) genes in Kaposi sarcoma","volume":"93","author":"W Zhong","year":"1996","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"1","key":"ref14","doi-asserted-by":"crossref","first-page":"715","DOI":"10.1128\/JVI.71.1.715-719.1997","article-title":"Kaposi\u2019s sarcoma-associated herpesvirus gene expression in endothelial (spindle) tumor cells","volume":"71","author":"KA Staskus","year":"1997","journal-title":"J Virol"},{"issue":"6","key":"ref15","doi-asserted-by":"crossref","first-page":"5149","DOI":"10.1128\/JVI.73.6.5149-5155.1999","article-title":"Characterization of monoclonal antibodies raised against the latent nuclear antigen of human herpesvirus 8","volume":"73","author":"P Kellam","year":"1999","journal-title":"J Virol"},{"issue":"9035","key":"ref16","doi-asserted-by":"crossref","first-page":"1133","DOI":"10.1016\/S0140-6736(96)07560-5","article-title":"Prevalence of Kaposi\u2019s sarcoma associated herpesvirus infection measured by antibodies to recombinant capsid protein and latent immunofluorescence antigen","volume":"348","author":"GR Simpson","year":"1996","journal-title":"Lancet"},{"issue":"3","key":"ref17","doi-asserted-by":"crossref","first-page":"743","DOI":"10.1016\/S0002-9440(10)64940-1","article-title":"Differential viral protein expression in Kaposi\u2019s sarcoma-associated herpesvirus-infected diseases: Kaposi\u2019s sarcoma, primary effusion lymphoma, and multicentric Castleman\u2019s disease","volume":"156","author":"C Parravicini","year":"2000","journal-title":"Am. J Pathol"},{"issue":"2","key":"ref18","doi-asserted-by":"crossref","first-page":"335","DOI":"10.1006\/viro.2000.0196","article-title":"Expression and localization of human herpesvirus 8-encoded proteins in primary effusion lymphoma, Kaposi\u2019s sarcoma, and multicentric Castleman\u2019s disease","volume":"269","author":"H Katano","year":"2000","journal-title":"Virology"},{"issue":"2","key":"ref19","first-page":"96","article-title":"Expression of human herpesvirus 8 (HHV-8)-encoded immediate early protein, open reading frame 50, in HHV-8-associated diseases","volume":"4","author":"H Katano","year":"2001","journal-title":"Journal of human virology"},{"issue":"1","key":"ref20","doi-asserted-by":"crossref","first-page":"95","DOI":"10.1053\/hupa.2001.21131","article-title":"Colocalization of the viral interleukin-6 with latent nuclear antigen-1 of human herpesvirus-8 in endothelial spindle cells of Kaposi\u2019s sarcoma and lymphoid cells of multicentric Castleman\u2019s disease","volume":"32","author":"P Brousset","year":"2001","journal-title":"Human pathology"},{"issue":"7","key":"ref21","doi-asserted-by":"crossref","first-page":"3421","DOI":"10.1128\/JVI.76.7.3421-3439.2002","article-title":"Patterns of gene expression and a transactivation function exhibited by the vGCR (ORF74) chemokine receptor protein of Kaposi\u2019s sarcoma-associated herpesvirus","volume":"76","author":"CJ Chiou","year":"2002","journal-title":"J Virol"},{"issue":"10","key":"ref22","doi-asserted-by":"crossref","first-page":"617","DOI":"10.1111\/j.1440-1827.2006.02017.x","article-title":"Distinct expression of Kaposi\u2019s sarcoma-associated herpesvirus-encoded proteins in Kaposi\u2019s sarcoma and multicentric Castleman\u2019s disease","volume":"56","author":"Y Abe","year":"2006","journal-title":"Pathol Int"},{"issue":"9","key":"ref23","first-page":"2010","article-title":"Transcription profile of Kaposi\u2019s sarcoma-associated herpesvirus in primary Kaposi\u2019s sarcoma lesions as determined by real-time PCR arrays","volume":"63","author":"DP Dittmer","year":"2003","journal-title":"Cancer research"},{"issue":"5","key":"ref24","doi-asserted-by":"crossref","first-page":"e01633","DOI":"10.1128\/mBio.01633-14","article-title":"Viral profiling identifies multiple subtypes of Kaposi\u2019s sarcoma","volume":"5","author":"MC Hosseinipour","year":"2014","journal-title":"mBio"},{"issue":"1","key":"ref25","doi-asserted-by":"crossref","DOI":"10.3390\/pathogens6010011","article-title":"Quantitative Analysis of the KSHV Transcriptome Following Primary Infection of Blood and Lymphatic Endothelial Cells","volume":"6","author":"AG Bruce","year":"2017","journal-title":"Pathogens"},{"issue":"1","key":"ref26","doi-asserted-by":"crossref","first-page":"e1006844","DOI":"10.1371\/journal.ppat.1006844","article-title":"RNA-Seq of Kaposi\u2019s sarcoma reveals alterations in glucose and lipid metabolism","volume":"14","author":"FY Tso","year":"2018","journal-title":"PLoS pathogens"},{"issue":"9","key":"ref27","doi-asserted-by":"crossref","first-page":"1201","DOI":"10.1200\/JCO.1989.7.9.1201","article-title":"Kaposi\u2019s sarcoma in the acquired immune deficiency syndrome: a proposal for uniform evaluation, response, and staging criteria. AIDS Clinical Trials Group Oncology Committee","volume":"7","author":"SE Krown","year":"1989","journal-title":"Journal of clinical oncology: official journal of the American Society of Clinical Oncology"},{"issue":"Pt 12","key":"ref28","doi-asserted-by":"crossref","first-page":"3529","DOI":"10.1099\/vir.0.82339-0","article-title":"High levels of retroperitoneal fibromatosis (RF)-associated herpesvirus in RF lesions in macaques are associated with ORF73 LANA expression in spindleoid tumour cells","volume":"87","author":"AG Bruce","year":"2006","journal-title":"The Journal of general virology"},{"issue":"4","key":"ref29","doi-asserted-by":"crossref","first-page":"833","DOI":"10.1016\/S1097-2765(01)00227-1","article-title":"Signaling by human herpesvirus 8 kaposin A through direct membrane recruitment of cytohesin-1","volume":"7","author":"S Kliche","year":"2001","journal-title":"Molecular cell"},{"issue":"6","key":"ref30","doi-asserted-by":"crossref","first-page":"4980","DOI":"10.1128\/JVI.72.6.4980-4988.1998","article-title":"Identification of kaposin (open reading frame K12) as a human herpesvirus 8 (Kaposi\u2019s sarcoma-associated herpesvirus) transforming gene","volume":"72","author":"S Muralidhar","year":"1998","journal-title":"J Virol"},{"key":"ref31","article-title":"Mechanisms of Kaposi\u2019s Sarcoma-Associated Herpesvirus Latency and Reactivation","volume":"2011","author":"F Ye","year":"2011","journal-title":"Advances in virology"},{"issue":"1","key":"ref32","doi-asserted-by":"crossref","first-page":"e1003863","DOI":"10.1371\/journal.ppat.1003863","article-title":"Kaposi\u2019s sarcoma associated herpesvirus tegument protein ORF75 is essential for viral lytic replication and plays a critical role in the antagonization of ND10-instituted intrinsic immunity","volume":"10","author":"F Full","year":"2014","journal-title":"PLoS pathogens"},{"issue":"16","key":"ref33","doi-asserted-by":"crossref","first-page":"8231","DOI":"10.1128\/JVI.01696-09","article-title":"Role of the Kaposi\u2019s sarcoma-associated herpesvirus K15 SH3 binding site in inflammatory signaling and B-cell activation","volume":"84","author":"M Pietrek","year":"2010","journal-title":"J Virol"},{"issue":"9","key":"ref34","doi-asserted-by":"crossref","first-page":"e1002927","DOI":"10.1371\/journal.ppat.1002927","article-title":"Kaposi\u2019s sarcoma herpesvirus K15 protein contributes to virus-induced angiogenesis by recruiting PLCgamma1 and activating NFAT1-dependent RCAN1 expression","volume":"8","author":"K Bala","year":"2012","journal-title":"PLoS pathogens"},{"issue":"8","key":"ref35","doi-asserted-by":"crossref","first-page":"e1005105","DOI":"10.1371\/journal.ppat.1005105","article-title":"Inhibiting the Recruitment of PLCgamma1 to Kaposi\u2019s Sarcoma Herpesvirus K15 Protein Reduces the Invasiveness and Angiogenesis of Infected Endothelial Cells","volume":"11","author":"S Gramolelli","year":"2015","journal-title":"PLoS pathogens"},{"issue":"8","key":"ref36","doi-asserted-by":"crossref","first-page":"6646","DOI":"10.1128\/JVI.73.8.6646-6660.1999","article-title":"Comparison of genetic variability at multiple loci across the genomes of the major subtypes of Kaposi\u2019s sarcoma-associated herpesvirus reveals evidence for recombination and for two distinct types of open reading frame K15 alleles at the right-hand end","volume":"73","author":"LJ Poole","year":"1999","journal-title":"J Virol"},{"issue":"Pt 10","key":"ref37","doi-asserted-by":"crossref","first-page":"2393","DOI":"10.1099\/0022-1317-82-10-2393","article-title":"Recombination in human herpesvirus-8 strains from Uganda and evolution of the K15 gene","volume":"82","author":"DN Kakoola","year":"2001","journal-title":"The Journal of general virology"},{"issue":"1","key":"ref38","doi-asserted-by":"crossref","first-page":"106","DOI":"10.1006\/viro.1999.9853","article-title":"Individuals from North America, Australasia, and Africa are infected with four different genotypes of human herpesvirus 8","volume":"261","author":"YX Meng","year":"1999","journal-title":"Virology"},{"issue":"24","key":"ref39","doi-asserted-by":"crossref","first-page":"12299","DOI":"10.1128\/JVI.01712-15","article-title":"Whole-Genome Sequencing of Kaposi\u2019s Sarcoma-Associated Herpesvirus from Zambian Kaposi\u2019s Sarcoma Biopsy Specimens Reveals Unique Viral Diversity","volume":"89","author":"LN Olp","year":"2015","journal-title":"J Virol"},{"key":"ref40","first-page":"1","article-title":"Modern evolutionary history of the human KSHV genome","volume":"312","author":"GS Hayward","year":"2007","journal-title":"Curr Top Microbiol Immunol"},{"issue":"23","key":"ref41","doi-asserted-by":"crossref","first-page":"11880","DOI":"10.1128\/JVI.76.23.11880-11888.2002","article-title":"The Kaposi\u2019s sarcoma-associated herpesvirus K12 transcript from a primary effusion lymphoma contains complex repeat elements, is spliced, and initiates from a novel promoter","volume":"76","author":"H Li","year":"2002","journal-title":"J Virol"},{"issue":"2","key":"ref42","doi-asserted-by":"crossref","first-page":"1438","DOI":"10.1128\/JVI.73.2.1438-1446.1999","article-title":"Characterization and cell cycle regulation of the major Kaposi\u2019s sarcoma-associated herpesvirus (human herpesvirus 8) latent genes and their promoter","volume":"73","author":"R Sarid","year":"1999","journal-title":"J Virol"},{"issue":"4","key":"ref43","doi-asserted-by":"crossref","first-page":"1857","DOI":"10.1128\/JVI.75.4.1857-1863.2001","article-title":"Mechanisms governing expression of the v-FLIP gene of Kaposi\u2019s sarcoma-associated herpesvirus","volume":"75","author":"A Grundhoff","year":"2001","journal-title":"J Virol"},{"issue":"7","key":"ref44","doi-asserted-by":"crossref","first-page":"5722","DOI":"10.1128\/JVI.73.7.5722-5730.1999","article-title":"A complex translational program generates multiple novel proteins from the latently expressed kaposin (K12) locus of Kaposi\u2019s sarcoma-associated herpesvirus","volume":"73","author":"R Sadler","year":"1999","journal-title":"J Virol"},{"issue":"5710","key":"ref45","doi-asserted-by":"crossref","first-page":"739","DOI":"10.1126\/science.1105779","article-title":"The kaposin B protein of KSHV activates the p38\/MK2 pathway and stabilizes cytokine mRNAs","volume":"307","author":"C McCormick","year":"2005","journal-title":"Science"},{"issue":"4","key":"ref46","doi-asserted-by":"crossref","first-page":"2333","DOI":"10.1128\/JVI.03317-14","article-title":"MicroRNA-mediated transformation by the Kaposi\u2019s sarcoma-associated herpesvirus Kaposin locus","volume":"89","author":"E Forte","year":"2015","journal-title":"J Virol"},{"issue":"23","key":"ref47","doi-asserted-by":"crossref","first-page":"8635","DOI":"10.1128\/MCB.20.23.8635-8642.2000","article-title":"Upstream open reading frames as regulators of mRNA translation","volume":"20","author":"DR Morris","year":"2000","journal-title":"Molecular and cellular biology"},{"key":"ref48","doi-asserted-by":"crossref","first-page":"165","DOI":"10.3389\/fmicb.2012.00165","article-title":"Kaposi\u2019s Sarcoma-Associated Herpesvirus microRNAs","volume":"3","author":"E Gottwein","year":"2012","journal-title":"Frontiers in microbiology"},{"issue":"22","key":"ref49","doi-asserted-by":"crossref","first-page":"14457","DOI":"10.1128\/JVI.79.22.14457-14464.2005","article-title":"Transcripts encoding K12, v-FLIP, v-cyclin, and the microRNA cluster of Kaposi\u2019s sarcoma-associated herpesvirus originate from a common promoter","volume":"79","author":"M Pearce","year":"2005","journal-title":"J Virol"},{"issue":"5","key":"ref50","doi-asserted-by":"crossref","first-page":"2234","DOI":"10.1128\/JVI.80.5.2234-2242.2006","article-title":"Transcriptional origin of Kaposi\u2019s sarcoma-associated herpesvirus microRNAs","volume":"80","author":"X Cai","year":"2006","journal-title":"J Virol"},{"issue":"24","key":"ref51","doi-asserted-by":"crossref","first-page":"13544","DOI":"10.1128\/JVI.01521-07","article-title":"RNA editing of the human herpesvirus 8 kaposin transcript eliminates its transforming activity and is induced during lytic replication","volume":"81","author":"SZ Gandy","year":"2007","journal-title":"J Virol"},{"issue":"11","key":"ref52","doi-asserted-by":"crossref","first-page":"e1003749","DOI":"10.1371\/journal.ppat.1003749","article-title":"A viral genome landscape of RNA polyadenylation from KSHV latent to lytic infection","volume":"9","author":"V Majerciak","year":"2013","journal-title":"PLoS pathogens"},{"issue":"1","key":"ref53","doi-asserted-by":"crossref","first-page":"13","DOI":"10.1002\/stem.5530120106","article-title":"Predictive statistics and artificial intelligence in the U.S. National Cancer Institute\u2019s Drug Discovery Program for Cancer and AIDS","volume":"12","author":"JN Weinstein","year":"1994","journal-title":"Stem cells"},{"key":"ref54","doi-asserted-by":"crossref","first-page":"31","DOI":"10.1186\/1746-1596-3-31","article-title":"Histological variants of cutaneous Kaposi sarcoma","volume":"3","author":"W Grayson","year":"2008","journal-title":"Diagnostic pathology"},{"issue":"16","key":"ref55","doi-asserted-by":"crossref","first-page":"8615","DOI":"10.1128\/JVI.78.16.8615-8629.2004","article-title":"Kaposi\u2019s sarcoma-associated herpesvirus ori-Lyt-dependent DNA replication: cis-acting requirements for replication and ori-Lyt-associated RNA transcription","volume":"78","author":"Y Wang","year":"2004","journal-title":"J Virol"},{"issue":"23","key":"ref56","doi-asserted-by":"crossref","first-page":"12838","DOI":"10.1128\/JVI.02374-13","article-title":"Comprehensive mapping and analysis of Kaposi\u2019s sarcoma-associated herpesvirus 3&apos; UTRs identify differential posttranscriptional control of gene expression in lytic versus latent infection","volume":"87","author":"LV McClure","year":"2013","journal-title":"J Virol"},{"issue":"3","key":"ref57","doi-asserted-by":"crossref","first-page":"2232","DOI":"10.1128\/JVI.73.3.2232-2242.1999","article-title":"Kinetics of Kaposi\u2019s sarcoma-associated herpesvirus gene expression","volume":"73","author":"R Sun","year":"1999","journal-title":"J Virol"},{"issue":"1","key":"ref58","doi-asserted-by":"crossref","first-page":"68","DOI":"10.1002\/(SICI)1097-0215(19970703)72:1<68::AID-IJC10>3.0.CO;2-6","article-title":"Expression of HHV-8 latency-associated T0.7 RNA in spindle cells and endothelial cells of AIDS-associated, classical and African Kaposi\u2019s sarcoma","volume":"72","author":"M Sturzl","year":"1997","journal-title":"International journal of cancer"},{"issue":"Suppl 1","key":"ref59","doi-asserted-by":"crossref","first-page":"S110","DOI":"10.1038\/sj.leu.2401323","article-title":"Human herpesvirus-8 (HHV-8) gene expression in Kaposi\u2019s sarcoma (KS) primary lesions: an in situ hybridization study","volume":"13","author":"M Sturzl","year":"1999","journal-title":"Leukemia"},{"issue":"10","key":"ref60","doi-asserted-by":"crossref","first-page":"3825","DOI":"10.1182\/blood.V91.10.3825","article-title":"Demonstration of Kaposi\u2019s sarcoma-associated herpes virus cyclin D homolog in cutaneous Kaposi\u2019s sarcoma by colorimetric in situ hybridization using a catalyzed signal amplification system","volume":"91","author":"JA Reed","year":"1998","journal-title":"Blood"},{"issue":"20","key":"ref61","doi-asserted-by":"crossref","first-page":"1725","DOI":"10.1093\/jnci\/91.20.1725","article-title":"Expression of K13\/v-FLIP gene of human herpesvirus 8 and apoptosis in Kaposi\u2019s sarcoma spindle cells","volume":"91","author":"M Sturzl","year":"1999","journal-title":"J Natl Cancer Inst"},{"issue":"4","key":"ref62","doi-asserted-by":"crossref","first-page":"1864","DOI":"10.1128\/JVI.75.4.1864-1869.2001","article-title":"Kaposi\u2019s sarcoma-associated herpesvirus vCyclin open reading frame contains an internal ribosome entry site","volume":"75","author":"L Bieleski","year":"2001","journal-title":"J Virol"},{"issue":"9","key":"ref63","doi-asserted-by":"crossref","first-page":"e1006639","DOI":"10.1371\/journal.ppat.1006639","article-title":"The Kaposi\u2019s sarcoma-associated herpesvirus (KSHV) non-structural membrane protein K15 is required for viral lytic replication and may represent a therapeutic target","volume":"13","author":"B Abere","year":"2017","journal-title":"PLoS pathogens"},{"issue":"12","key":"ref64","doi-asserted-by":"crossref","first-page":"6213","DOI":"10.1128\/JVI.76.12.6213-6223.2002","article-title":"Charting latency transcripts in Kaposi\u2019s sarcoma-associated herpesvirus by whole-genome real-time quantitative PCR","volume":"76","author":"FD Fakhari","year":"2002","journal-title":"J Virol"},{"issue":"4","key":"ref65","doi-asserted-by":"crossref","first-page":"357","DOI":"10.1038\/nmeth.1923","article-title":"Fast gapped-read alignment with Bowtie 2","volume":"9","author":"B Langmead","year":"2012","journal-title":"Nature methods"},{"issue":"4","key":"ref66","doi-asserted-by":"crossref","first-page":"R36","DOI":"10.1186\/gb-2013-14-4-r36","article-title":"TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions","volume":"14","author":"D Kim","year":"2013","journal-title":"Genome biology"},{"issue":"W1","key":"ref67","doi-asserted-by":"crossref","first-page":"W3","DOI":"10.1093\/nar\/gkw343","article-title":"The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update","volume":"44","author":"E Afgan","year":"2016","journal-title":"Nucleic acids research"},{"issue":"1","key":"ref68","doi-asserted-by":"crossref","first-page":"24","DOI":"10.1038\/nbt.1754","article-title":"Integrative genomics viewer","volume":"29","author":"JT Robinson","year":"2011","journal-title":"Nature biotechnology"},{"issue":"2","key":"ref69","doi-asserted-by":"crossref","first-page":"166","DOI":"10.1093\/bioinformatics\/btu638","article-title":"HTSeq\u2014a Python framework to work with high-throughput sequencing data","volume":"31","author":"S Anders","year":"2015","journal-title":"Bioinformatics"}],"updated-by":[{"DOI":"10.1371\/journal.ppat.1007441","type":"new_version","label":"New version","source":"publisher","updated":{"date-parts":[[2018,12,31]],"date-time":"2018-12-31T00:00:00Z","timestamp":1546214400000}}],"container-title":["PLOS Pathogens"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.ppat.1007441","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,11,18]],"date-time":"2020-11-18T01:37:22Z","timestamp":1605663442000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.ppat.1007441"}},"subtitle":[],"editor":[{"given":"Thomas F.","family":"Schulz","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2018,12,17]]},"references-count":69,"journal-issue":{"issue":"12","published-online":{"date-parts":[[2018,12,17]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.ppat.1007441","relation":{"new_version":[{"id-type":"doi","id":"10.1371\/journal.ppat.1007441","asserted-by":"object"}]},"ISSN":["1553-7374"],"issn-type":[{"value":"1553-7374","type":"electronic"}],"subject":[],"published":{"date-parts":[[2018,12,17]]}}}