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Status |
Public on Dec 11, 2015 |
Title |
RNA Polymerase II-associated factor 1 regulates the release and phosphorylation of paused RNA Polymerase II |
Organism |
Homo sapiens |
Experiment type |
Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing
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Summary |
Release of promoter-proximal paused RNA polymerase II (Pol II) during early elongation is a critical step in transcriptional regulation in metazoan cells. Paused Pol II release is thought to require the kinase activity of cyclin-dependent kinase 9 (CDK9) for the phosphorylation of DRB sensitivity-inducing factor, negative elongation factor, and C-terminal domain (CTD) serine-2 of Pol II. We found that Pol II-associated factor 1 (PAF1) is a critical regulator of paused Pol II release, that positive transcription elongation factor b (P-TEFb) directly regulates the initial recruitment of PAF1 complex (PAF1C) to genes, and that the subsequent recruitment of CDK12 is dependent on PAF1C. These findings reveal cooperativity among P-TEFb, PAF1C, and CDK12 in pausing release and Pol II CTD phosphorylation.
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Overall design |
Comparison of the chromatin occupancy of [1] PAF1, CDC73, LEO1, CTR9, total Pol II, and CTD serine 2-phosphorylated Pol II by ChIP-seq in THP1 cells; [2] PAF1, Pol II, Pol II (ser-5p), CDK12, and CDK9 by ChIP-seq in control and PAF1 knockdown cells; [3] LEO1 and Pol II by ChIP-seq in control and flavopiridol treated THP1 cells.
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Contributor(s) |
Yu M, Yang W, Ni T, Tang Z, Nakadai T, Zhu J, Roeder RG |
Citation(s) |
26659056 |
Submission date |
Oct 08, 2014 |
Last update date |
May 15, 2019 |
Contact name |
Robert Roeder |
E-mail(s) |
roeder@rockefeller.edu
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Organization name |
The Rockefeller University
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Street address |
1230 York Avenue
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City |
New York |
State/province |
NY |
ZIP/Postal code |
10065 |
Country |
USA |
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Platforms (2) |
GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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Samples (32)
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Relations |
BioProject |
PRJNA263366 |
SRA |
SRP048744 |
Supplementary file |
Size |
Download |
File type/resource |
GSE62171_RAW.tar |
1.1 Gb |
(http)(custom) |
TAR (of BEDGRAPH, TXT) |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |
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