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| Status |
Public on Jul 09, 2017 |
| Title |
RNA-seq detects pharmacological inhibition of Epstein-Barr virus late transcription during spontaneous reactivation. |
| Organisms |
Homo sapiens; human gammaherpesvirus 4 |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
The stepwise and sequential expression of viral genes underlies progression of the infectious life cycle. The Epstein-Barr virus (EBV) is both a tractable model for elucidating principles of transcription as well as a global health threat. We describe an experimental protocol and bioinformatics pipeline for functional identification of EBV true late genes, the last step of transcription prior to virion packaging and egress. All data have been uploaded to the Gene Expression Omnibus under accession code GSE96689. The key improvement over previous approaches is leveraging the sensitivity of RNA-seq to detect gene expression changes during spontaneous reactivation.
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| Overall design |
Examination of late gene expression in 2 cell types after acyclovir treatment.
Please note that the wig files are a slightly modified format in that they display a viral genome not available as a chromosome on the UCSC genome browser. The wig files are readable by the IGV browser (as described in the associated publication).
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| |
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| Contributor(s) |
Miranda J, Martinez D |
| Citation(s) |
28560170 |
| |
| Submission date |
Mar 16, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
JJ Miranda |
| E-mail(s) |
jmiranda@barnard.edu
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| Organization name |
Barnard College, Columbia University
|
| Street address |
3009 Broadway
|
| City |
New York |
| ZIP/Postal code |
10027 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL23185 |
Illumina HiSeq 2500 (Homo sapiens; Human gammaherpesvirus 4) |
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| Samples (12)
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| Relations |
| BioProject |
PRJNA379377 |
| SRA |
SRP101998 |
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