|
| Status |
Public on Feb 06, 2018 |
| Title |
Enhancer analysis of rat cardiac myocytes and fibroblasts reveals a collaborative control by transcription factor families [ATAC-Seq] |
| Organism |
Rattus norvegicus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
We used a differential open chromatin approach, coupled with active enhancer mark ,transcriptomic and computational TFs binding analysis to map cell-type-specific active enhancers in cardiac fibroblasts and cardiomyocytes, and outline the TFs that control them. We identified Tead, Sox9, Smad, Tcf, Meis, Rbpj, and Runx1 as the main cardiac fibroblasts TF groups. Our analysis shows that in cardiomyocytes and cardiac fibroblasts, distal enhancers, containing concentrated combinatorial clusters of multiple tissue expressed TFs recognition motifs, are combinatorically clustered around tissue specific genes.
|
| |
|
| Overall design |
We examined 4 different biological samples ('cardioPE', 'cardioSFM', 'cardioGata4' (cardiomyocytes in 3 different conditions) and 'cardiacFibro'), in duplicates, to identify the 'open' chromatin regions of each by using ATAC-seq assay.
|
| |
|
| Contributor(s) |
Golan-Lagziel T, Lewis Y, Douvdevany G, H.Caspi L, Kehat I |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Aug 11, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Izhak Kehat |
| E-mail(s) |
ikehat@technion.ac.il
|
| Organization name |
Technion - Israel's Institute of Technology
|
| Street address |
Efron St.
|
| City |
Haifa |
| ZIP/Postal code |
3525422 |
| Country |
Israel |
| |
|
| Platforms (1) |
| GPL18694 |
Illumina HiSeq 2500 (Rattus norvegicus) |
|
| Samples (8)
|
|
| This SubSeries is part of SuperSeries: |
| GSE102532 |
Enhancer analysis of rat cardiac myocytes and fibroblasts reveals a collaborative control by transcription factor families |
|
| Relations |
| BioProject |
PRJNA398103 |
| SRA |
SRP115346 |
Less...
More...