|
| Status |
Public on Oct 06, 2011 |
| Title |
CTCF promotes RNA pol II pausing and links DNA methylation to alternative splicing [RNA-Seq] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
The goal of this study was to investigate the role of intragenic CTCF in alternative pre-mRNA splicing through a combined CTCF-ChIP-seq and RNA-seq approach. CTCF depletion led to decreased inclusion of weak upstream exons.
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| |
|
| Overall design |
CTCF ChIP-seq was performed in BJAB and BL41 B cell lines and normalized relative to Rabbit Ig control IP-seq reads. RNA-seq was performed in BJAB and BL41 cells transduced with shRNA against CTCF or RFP as a control, and in untransduced cells as well.
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| |
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| Contributor(s) |
Shukla S, Oberdoerffer S, Sandberg R |
| Citation(s) |
21964334 |
| |
| Submission date |
Aug 18, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Shalini Oberdoerffer |
| E-mail(s) |
shalini.oberdoerffer@nih.gov
|
| Phone |
301-846-7104
|
| Organization name |
National Cancer Institute
|
| Street address |
1050 Boyles Street
|
| City |
Frederick |
| State/province |
MD |
| ZIP/Postal code |
21702 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL10999 |
Illumina Genome Analyzer IIx (Homo sapiens) |
|
| Samples (6)
|
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| This SubSeries is part of SuperSeries: |
| GSE31278 |
CTCF promotes RNA pol II pausing and links DNA methylation to alternative splicing |
|
| Relations |
| SRA |
SRP007885 |
| BioProject |
PRJNA154053 |
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