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| Status |
Public on Sep 11, 2014 |
| Title |
Tissue-Specific RNA Expression Marks Distant Acting Developmental Enhancers |
| Organism |
Mus musculus |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
In this study, we explored the in vivo expression dynamics of tissue-specific non-coding RNAs in embryonic mouse tissues via in-depth transcriptome profiling. Overall, approximately 80% of validated in vivo enhancers show tissue-specific RNA expression that correlates with tissue-specific enhancer activity. Globally, we identified thousands of tissue-specifically transcribed non-coding regions (TSTRs) displaying various genomic hallmarks of bona fide enhancers. Together, our results demonstrate that tissue-specific eRNA expression is a common feature of in vivo enhancers, as well as a major source of extragenic transcription, and that eRNA expression signatures can be used to predict tissue-specific enhancers independent of known epigenomic enhancer marks.
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| |
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| Overall design |
Examimation of total RNA expression in mouse heart and limb tissues collected at mouse embryonic day 11.5.
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| |
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| Contributor(s) |
Wu H, Nord AS |
| Citation(s) |
25188404 |
| Submission date |
Jun 02, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Han Wu |
| E-mail(s) |
hanwu@lbl.gov
|
| Phone |
5104686030
|
| Organization name |
Lawrence Berkeley National Lab
|
| Department |
Genomics Division
|
| Lab |
Len Pennacchio
|
| Street address |
1 Cyclotron Road, Mail Stop 84-171
|
| City |
Berkeley |
| State/province |
California |
| ZIP/Postal code |
94720 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
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| Samples (2) |
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| Relations |
| BioProject |
PRJNA251403 |
| SRA |
SRP042622 |
