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| Status |
Public on Apr 15, 2010 |
| Title |
Widespread transcription at neuronal activity-regulated enhancers |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
|
| Summary |
We used genome-wide sequencing methods to study stimulus-dependent enhancer function in neurons. We identified ~12,000 neuronal activity-regulated enhancers that are bound by the general transcriptional co-activator CBP in an activity-dependent manner. A function of CBP at enhancers may be to recruit RNA polymerase II (RNAPII), as we also observed activity-regulated RNAPII binding to thousands of enhancers. Remarkably, RNAPII at enhancers transcribes bi-directionally a novel class of enhancer RNAs (eRNAs) within enhancer domains defined by the presence of histone H3 that is mono-methylated at lysine 4 (H3K4me1). The level of eRNA expression at neuronal enhancers positively correlates with the level of mRNA synthesis at nearby genes, suggesting that eRNA synthesis occurs specifically at enhancers that are actively engaged in promoting mRNA synthesis. These findings reveal that a widespread mechanism of enhancer activation involves RNAPII binding and eRNA synthesis.
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| Overall design |
Examination of genome-wide binding of three types of modified histones, four transcription factors, and RNA polymerase II (ChIP-Seq), as well as RNA expression (RNA-Seq) before and after membrane depolarization via application of extracellular potassium.
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| Contributor(s) |
Kim T, Hemberg M, Gray JM, Kreiman G, Greenberg ME |
| Citation(s) |
20393465, 24201284 |
| |
| Submission date |
Apr 01, 2010 |
| Last update date |
Oct 22, 2019 |
| Contact name |
jesse M gray |
| E-mail(s) |
jesse.gray@gmail.com
|
| Phone |
6174321877
|
| Organization name |
Harvard Medical School
|
| Department |
Genetics
|
| Lab |
Gray lab
|
| Street address |
77 avenue louis pasteur, NRB 356
|
| City |
boston |
| State/province |
MA |
| ZIP/Postal code |
02115 |
| Country |
USA |
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| Platforms (1) |
| GPL9318 |
AB SOLiD System 3.0 (Mus musculus) |
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| Samples (48)
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| Relations |
| BioProject |
PRJNA126613 |
| SRA |
SRP002302 |
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