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| Status |
Public on Apr 14, 2023 |
| Title |
Egr2 promoter antisense RNA as coordinator of chromatin remodeling and genome reorganization in Schwann cells [Hi-C] |
| Organism |
Rattus norvegicus |
| Experiment type |
Other
|
| Summary |
The Egr2 promoter antisense RNA (Egr2-AS-RNA) recruits chromatin remodeling complexes to inhibit Egr2 transcription following peripheral nerve injury. Here we show that the Egr2-AS-RNA modulates chromatin accessibility and serves as scaffold for two distinct histone modification complexes. The Egr2-AS-RNA binds to Ezh2 and Wdr5 and enables coordinate targeting of H3K27me3 and H3K4me3 to promoters of Egr2 and c-Jun. Expression of the AS-RNA results in reorganization of the global chromatin landscape and quantitative changes in loop formation and in contact frequency at domain boundaries exhibiting enrichment for AP-1 binding events. Our results show for the first time that the Egr2 promoter AS-RNA may serve as a regulator of coordinate chromatin remodeling and genome organization to regulate transcription, with a significant role in phenotypic plasticity of SCs.
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| Overall design |
We performed HiC on Schwann cells after ectopic expression of the Egr2-AS-RNA. We identified the static, lost and gained loops and we annotate them to their promoters.
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| Contributor(s) |
Tapinos N, Fajardo JE, Karambizi D, Chen JS, Hwang H, Martinez-Moreno M |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Apr 26, 2022 |
| Last update date |
Apr 16, 2023 |
| Contact name |
Jorge Eduardo Fajardo |
| E-mail(s) |
eduardo@fiserlab.org
|
| Organization name |
Albert Einstein College of Medicine
|
| Department |
Systems and Computational Biology
|
| Street address |
1300 Morris Park Avenue
|
| City |
Bronx |
| State/province |
NY |
| ZIP/Postal code |
10461 |
| Country |
USA |
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| Platforms (1) |
| GPL18694 |
Illumina HiSeq 2500 (Rattus norvegicus) |
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| Samples (4)
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| This SubSeries is part of SuperSeries: |
| GSE201627 |
Egr2 promoter antisense RNA as coordinator of chromatin remodeling and genome reorganization in Schwann cells |
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| Relations |
| BioProject |
PRJNA832332 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE201625_LentiAS_100000_abs.bed.gz |
157.9 Kb |
(ftp)(http) |
BED |
| GSE201625_LentiAS_100000_iced.matrix.gz |
244.2 Mb |
(ftp)(http) |
MATRIX |
| GSE201625_LentiAS_10000_abs.bed.gz |
1.5 Mb |
(ftp)(http) |
BED |
| GSE201625_LentiAS_10000_iced.matrix.gz |
599.2 Mb |
(ftp)(http) |
MATRIX |
| GSE201625_LentiGFP_100000_abs.bed.gz |
157.9 Kb |
(ftp)(http) |
BED |
| GSE201625_LentiGFP_100000_iced.matrix.gz |
230.3 Mb |
(ftp)(http) |
MATRIX |
| GSE201625_LentiGFP_10000_abs.bed.gz |
1.5 Mb |
(ftp)(http) |
BED |
| GSE201625_LentiGFP_10000_iced.matrix.gz |
571.3 Mb |
(ftp)(http) |
MATRIX |
| GSE201625_RAW.tar |
480.5 Mb |
(http)(custom) |
TAR (of BED, MATRIX) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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