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| Status |
Public on Oct 15, 2019 |
| Title |
m6A-RNA mapping, SND1-RNA binding profile mapping and SND1-depletion in KSHV-infected B-lymphocytes |
| Organism |
Homo sapiens |
| Experiment type |
Methylation profiling by high throughput sequencing
Expression profiling by high throughput sequencing
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| Summary |
We have mapped m6A sites and endogenous SND1 binding sites in the viral and cellular transcriptome using TREx BCBL1-Rta cells. In addition, we have depleted SND1 in TREx BCBL1-Rta cells and BCBL1 cells and analyzed their RNA expression profile both during latency and lytic replication.
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| Overall design |
Identification of m6A sites in TREx BCBL1-Rta cells at 0h, 8 and 20 h post-lytic reactivation. SND1 transcriptome-wide binding profile in TREx BCBL1-Rta cells at 0h, 8 and 20 h post-lytic reactivation. RNA expression profile in scramble and SND1-depleted cells in both latent and reactivated TREx BCBL1-Rta cells for 24 h. Same RNA expression profile in shRNA scramble and shRNA SND1-depleted BCBL1 cells.
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| Contributor(s) |
Baquero-Perez B, Antanaviciute A, Carr I, Whitehouse A |
| Citation(s) |
31647415 |
| Submission date |
Aug 24, 2018 |
| Last update date |
Nov 04, 2019 |
| Contact name |
Agne Antanaviciute |
| E-mail(s) |
umaan@leeds.ac.uk
|
| Organization name |
University of Leeds
|
| Street address |
University of Leeds, St. James’s University Hospital
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| City |
leeds |
| ZIP/Postal code |
LS9 7TF |
| Country |
United Kingdom |
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| Platforms (2) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
| GPL21290 |
Illumina HiSeq 3000 (Homo sapiens) |
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| Samples (43)
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| Relations |
| BioProject |
PRJNA487788 |
| SRA |
SRP158777 |
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