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J Virol. 2010 Dec;84(24):13053-8. doi: 10.1128/JVI.01521-10. Epub 2010 Oct 13.

Quantitative and qualitative RNA-Seq-based evaluation of Epstein-Barr virus transcription in type I latency Burkitt's lymphoma cells.

Author information

1
Department of Pathology, Tulane University Health Sciences Center, 1430 Tulane Ave., New Orleans, LA 70112, USA.

Abstract

RNA-seq provides a rich source of transcriptome information with high qualitative and quantitative value. Here, we provide a pipeline for Epstein-Barr virus (EBV) transcriptome analysis using RNA-seq and we apply it to two type I latency cell lines, Mutu I and Akata. This analysis revealed substantial average expression levels of many lytic genes in predominantly latent cell populations. The lytic transcripts BHLF1 and LF3 were expressed at levels greater than those for 98% of all cellular polyadenylated transcripts. Exon junction mapping accurately identified the Qp-derived EBNA1 splicing pattern, lytic gene splicing, and a complex splicing pattern within the BamHI A region.

PMID:
20943983
PMCID:
PMC3004295
DOI:
10.1128/JVI.01521-10
[Indexed for MEDLINE]
Free PMC Article

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