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| Status |
Public on Feb 28, 2019 |
| Title |
Selective roles of vertebrate PCF11 in premature and full-length transcript termination (ChIP-seq) |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
The pervasive nature of RNA polymerase II (Pol II) transcription requires efficient termination. A key player in this process is the cleavage and polyadenylation (CPA) factor PCF11, which directly binds to the Pol II C-terminal domain and dismantles elongating Pol II from DNA in vitro. We demonstrate that PCF11-mediated termination is essential for vertebrate development. A range of genomic analyses, including: mNET-seq, 3’ mRNA-seq, chromatin RNA-seq and ChIP-seq, reveals that PCF11 enhances transcription termination and stimulates early polyadenylation genome-wide. PCF11 binds preferentially between closely spaced genes, where it prevents transcriptional interference and downstream gene silencing. Notably, PCF11 is sub-stoichiometric to the CPA complex. Low levels of PCF11 are maintained by an auto-regulatory mechanism involving premature termination of its own transcript, and are important for normal development. Both in human cell culture and during zebrafish development, PCF11 selectively attenuates the expression of other transcriptional regulators by premature CPA and termination.
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| Overall design |
ChIP-seq in HeLa cells.
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| Contributor(s) |
Kamieniarz-Gdula K, Gdula MR, Panser K, Pauli A, Proudfoot N |
| Citation(s) |
30819644 |
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| Submission date |
Feb 27, 2019 |
| Last update date |
May 02, 2019 |
| Contact name |
Kinga Kamieniarz-Gdula |
| Organization name |
University of Oxford
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| Department |
Sir William Dunn School of Pathology
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| Street address |
South Parks Road
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| City |
Oxford |
| ZIP/Postal code |
OX1 3RE |
| Country |
United Kingdom |
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| Platforms (2) |
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| Samples (25)
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| This SubSeries is part of SuperSeries: |
| GSE123105 |
Selective roles of vertebrate PCF11 in premature and full-length transcript termination |
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| Relations |
| BioProject |
PRJNA524536 |
| SRA |
SRP187020 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE127256_RAW.tar |
8.0 Gb |
(http)(custom) |
TAR (of BED, BEDGRAPH, BROADPEAK, BW) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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