|
| Status |
Public on Dec 08, 2017 |
| Title |
Transcription Pausing Regulates Mouse Embryonic Stem Cell Differentiation [ATAC-seq] |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
The pluripotency of embryonic stem cells (ESCs) relies on appropriate responsiveness to developmental cues. Promoter-proximal pausing of RNA polymerase II (Pol II) has been suggested to play a role in keeping genes poised for future activation. To identify the role of Pol II pausing in regulating ESC pluripotency, we have generated mouse ESCs carrying a mutation in the pause-inducing factor SPT5. Consistent with previous in vitro studies showing the pausing deficiency of this mutant SPT5, our genomic analysis reveals genome-wide reduction of paused Pol II in mutant mESCs. Furthermore, we find that genes differentially regulated by mutant SPT5 correlates with distinct chromatin states. Functionally, this pausing-deficient SPT5 disrupts ESC differentiation without affecting self-renewal. Thus, our study uncovers an important role of Pol II pausing in regulating ESC differentiation and also suggests that Pol II pausing can both positively and negatively influence transcription depending on the local chromatin environment.
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| |
|
| Overall design |
using ATAC-seq to analyze chromatin accessibility in mouse ESCs in serum-free media
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| |
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| Contributor(s) |
Tastemel M, Gogate AA, Malladi V, Mitchell C, Banaszynski LA, Bai X |
| Citation(s) |
29174978 |
| |
| Submission date |
Jun 06, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Xiaoying Bai |
| E-mail(s) |
xiaoying.bai@utsouthwestern.edu
|
| Organization name |
UT Southwestern Medical Center
|
| Department |
Department of Obstetrics and Gynecology
|
| Lab |
Bai Lab
|
| Street address |
5323 Harry Hines Blvd., J7.130
|
| City |
Dallas |
| State/province |
Texas |
| ZIP/Postal code |
75235 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
|
| Samples (2) |
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| This SubSeries is part of SuperSeries: |
| GSE99760 |
Transcription Pausing Regulates Mouse Embryonic Stem Cell Differentiation |
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| Relations |
| BioProject |
PRJNA389551 |
| SRA |
SRP108747 |
