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| Status |
Public on Aug 22, 2010 |
| Title |
ChIP-seq Identification of Weakly Conserved Heart Enhancers |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Accurate control of tissue-specific gene expression plays a pivotal role in heart development. However, few cardiac transcriptional enhancers have thus far been identified. Extreme non-coding sequence conservation successfully predicts enhancers active in many tissues, but fails to identify substantial numbers of enhancers active in the heart. We used ChIP-seq with the enhancer-associated protein p300 from mouse embryonic heart tissue to identify over three thousand candidate heart enhancers genome-wide. In contrast to other studied tissues at this time-point, most candidate heart enhancers are not deeply conserved in vertebrate evolution. Nevertheless, the testing of 130 candidate regions in a transgenic mouse assay revealed that most of them reproducibly function as enhancers active in the heart, irrespective of their degree of evolutionary constraint. These results provide evidence for tissue-dependent differences in evolutionary constraint of enhancers acting through the transcriptional co-activator p300 at this time-point, and identify a large population of poorly conserved heart enhancers.
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| |
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| Overall design |
Examination of p300 binding in embryonic stage 11.5 mouse heart and midbrain
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| |
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| Contributor(s) |
Blow MJ, Visel A, Pennacchio LA |
| Citation(s) |
20729851 |
| Submission date |
Jun 24, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
Matthew James Blow |
| E-mail(s) |
mjblow@lbl.gov
|
| Phone |
510-486-6590
|
| Fax |
510-486-7004
|
| Organization name |
Lawrence Berkeley National Laboratory
|
| Department |
Genomics Division
|
| Lab |
Rubin / Pennacchio
|
| Street address |
1 Cyclotron Road
|
| City |
Berkeley |
| State/province |
CA |
| ZIP/Postal code |
94720 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL9185 |
Illumina Genome Analyzer (Mus musculus) |
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| Samples (2) |
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| Relations |
| SRA |
SRP002696 |
| BioProject |
PRJNA128177 |
