|
| Status |
Public on Dec 04, 2008 |
| Title |
Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
RNA polymerases are highly regulated molecular machines. We present a method (GRO-seq) that maps the position, amount, and orientation of transcriptionally-engaged RNA polymerases genome-wide. In this method, nuclear run-on RNAs are subjected to large-scale parallel sequencing and mapped to the genome. Here, we show that peaks of promoter-proximal polymerase reside on ~30% of human genes, transcription extends beyond pre-mRNA 3’ cleavage, and antisense transcription is prevalent. Additionally, most promoters have an engaged polymerase upstream and in an orientation opposite to the annotated gene. This divergent polymerase is associated with active genes, but does not elongate effectively beyond the promoter. These results imply that the interplay between polymerases and regulators over broad promoter regions dictates the orientation and efficiency of productive transcription.
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| |
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| Overall design |
Two biological replicates of nascent RNA sequencing
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| |
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| Contributor(s) |
Core LJ, Waterfall JJ, Lis JT |
| Citation(s) |
19056941 |
| |
| Submission date |
Nov 07, 2008 |
| Last update date |
May 15, 2019 |
| Contact name |
Leighton James Core |
| E-mail(s) |
ljc37@cornell.edu
|
| Organization name |
Cornell University
|
| Department |
Moleular Biology and Genetics
|
| Lab |
John T. Lis
|
| Street address |
417 Biotechnology Building
|
| City |
Ithaca |
| State/province |
NY |
| ZIP/Postal code |
14853 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL9052 |
Illumina Genome Analyzer (Homo sapiens) |
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| Samples (2) |
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| Relations |
| SRA |
SRP000629 |
| BioProject |
PRJNA110127 |
