|
| Status |
Public on Dec 31, 2009 |
| Title |
Close Association of RNA Polymerase II and Many Transcription Factors With Pol III Genes |
| Project |
ENCODE
|
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Transcription of the eukaryotic genomes is carried out by three distinct RNA polymerases I, II and III whereby each polymerase is thought to independently transcribe a distinct set of genes. To investigate a possible relationship of RNA polymerases II and III we mapped their in vivo binding sites throughout the human genome using ChIP Seq in two different cell lines, GM12878 and K562 cells. Pol III was found to bind near many known genes as well as several novel genes. RNA-Seq studies indicate that majority of the genes are expressed although a subset are not suggestive of stalling by RNA polymerase III. Pol II was found to bind near many known Pol III genes, including tRNA, U6, HVG, hY and 7SK and novel Pol III genes. Similarly, in vivo binding studies also reveal that a number of transcription factors normally associated with Pol II transcription, including c-Fos, c-Jun and c-Myc, also tightly associate with most Pol III transcribed genes. Inhibition of Pol II activity using ?-amanitin reduced expression of a number of Pol III genes (e.g. U6, hY, HVG), suggesting that Pol II plays an important role in regulating their transcription. These results indicate that, contrary to previous expectations, polymerases can often work with one another to globally coordinate gene expression.
For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf
This SuperSeries is composed of the SubSeries listed below.
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| |
|
| Overall design |
Refer to individual Series.
|
| Web link |
http://0-www-ncbi-nlm-nih-gov.brum.beds.ac.uk/projects/geo/info/ENCODE.html
|
| |
|
| Citation(s) |
20139302 |
| BioProject |
PRJNA63447 |
| Submission date |
Dec 17, 2009 |
| Last update date |
May 15, 2019 |
| Contact name |
Flora Vaccarino |
| Organization name |
Yale University
|
| Department |
Child Study Center
|
| Lab |
Vaccarino
|
| Street address |
230 South Frontage Road
|
| City |
New Haven |
| State/province |
CT |
| ZIP/Postal code |
06520 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL9052 |
Illumina Genome Analyzer (Homo sapiens) |
|
| Samples (7)
|
|
| This SuperSeries is composed of the following SubSeries:
|
| GSE19545 |
Genome-wide mapping of Jun binding site (K562) |
| GSE19546 |
Genome-wide mapping of Fos binding site (K562) |
| GSE19547 |
Genome-wide mapping of Myc binding site (K562) |
| GSE19548 |
Genome-wide mapping of RNA Pol III binding site (K562) |
| GSE19549 |
Genome-wide mapping of RNA Pol III binding site (GM12878) |
| GSE19550 |
Genome-wide mapping of RNA Pol II binding site (GM12878) |
|
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