|
| Status |
Public on Sep 10, 2019 |
| Title |
Enhancer Profiling Reveals Regulators of Skeletal Muscle Identity and Reprogramming [ChIP-seq, ATAC-seq] |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Chromatin immunoprecipitation sequencing of H3K4me2, H3K27ac as well as, ATACseq and RNA-seq reveals regulatory landscapes across different muscle groups, as well as in response to chronic exercise or muscle PGC1a overexpression. This work defines the unique enhancer repetoire of skeletal muscle in vivo and reveals that highly divergent exercise-induced or PGC1a-driven epigenomic programs direct partially convergent transcriptional networks.
|
| |
|
| Overall design |
Genome-wide maps of chromatin state in skeletal muscle in exercise, sedentary and transgenic PGC1a conditions
|
| |
|
| Contributor(s) |
Barish G, Ramachandran K |
| Citation(s) |
31589602 |
| |
| Submission date |
Dec 14, 2018 |
| Last update date |
Nov 04, 2019 |
| Contact name |
Grant D. Barish |
| Organization name |
Northwestern University
|
| Department |
Medicine
|
| Street address |
303 E Superior Street
|
| City |
Chicago |
| State/province |
IL |
| ZIP/Postal code |
60611 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
|
| Samples (62)
|
|
| This SubSeries is part of SuperSeries: |
| GSE123879 |
Enhancer Profiling Reveals Regulators of Skeletal Muscle Identity and Reprogramming |
|
| Relations |
| BioProject |
PRJNA510112 |
| SRA |
SRP173476 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE123877_Diaphragm_H3K27ac_peaks.txt.gz |
4.0 Mb |
(ftp)(http) |
TXT |
| GSE123877_Diaphragm_H3K4me2_peaks.txt.gz |
4.0 Mb |
(ftp)(http) |
TXT |
| GSE123877_EDL_H3K27ac_peaks.txt.gz |
5.1 Mb |
(ftp)(http) |
TXT |
| GSE123877_EDL_H3K4me2_peaks.txt.gz |
6.1 Mb |
(ftp)(http) |
TXT |
| GSE123877_ExerciseQuad_H3K27ac_peaks.txt.gz |
4.2 Mb |
(ftp)(http) |
TXT |
| GSE123877_ExerciseQuad_H3K4me2_peaks.txt.gz |
4.1 Mb |
(ftp)(http) |
TXT |
| GSE123877_ExerciseQuad_HyperH3K27ac_Peaks.txt.gz |
50.2 Kb |
(ftp)(http) |
TXT |
| GSE123877_ExerciseQuad_HypoH3K27ac_Peaks.txt.gz |
305.4 Kb |
(ftp)(http) |
TXT |
| GSE123877_Quad_ATAC_peaks.txt.gz |
961.3 Kb |
(ftp)(http) |
TXT |
| GSE123877_Quad_H3K27ac_peaks.txt.gz |
5.2 Mb |
(ftp)(http) |
TXT |
| GSE123877_Quad_H3K4me2_peaks.txt.gz |
5.6 Mb |
(ftp)(http) |
TXT |
| GSE123877_RAW.tar |
4.2 Gb |
(http)(custom) |
TAR (of BEDGRAPH, TXT) |
| GSE123877_SedentaryQuad_H3K27ac_peaks.txt.gz |
4.1 Mb |
(ftp)(http) |
TXT |
| GSE123877_SedentaryQuad_H3K4me2_peaks.txt.gz |
4.3 Mb |
(ftp)(http) |
TXT |
| GSE123877_Soleus_H3K27ac_peaks.txt.gz |
4.9 Mb |
(ftp)(http) |
TXT |
| GSE123877_Soleus_H3K4me2_peaks.txt.gz |
5.1 Mb |
(ftp)(http) |
TXT |
| GSE123877_WtQuad_H3K27ac_peaks.txt.gz |
5.9 Mb |
(ftp)(http) |
TXT |
| GSE123877_WtQuad_H3K4me2_peaks.txt.gz |
5.7 Mb |
(ftp)(http) |
TXT |
| GSE123877_mTgQuad_H3K27ac_peaks.txt.gz |
4.4 Mb |
(ftp)(http) |
TXT |
| GSE123877_mTgQuad_H3K4me2_peaks.txt.gz |
3.4 Mb |
(ftp)(http) |
TXT |
| GSE123877_mTgQuad_HyperH3K27ac_Peaks.txt.gz |
240.6 Kb |
(ftp)(http) |
TXT |
| GSE123877_mTgQuad_HypoH3K27ac_Peaks.txt.gz |
110.3 Kb |
(ftp)(http) |
TXT |
| GSE123877_muscleATAC_PGCcat_peaks.bed.gz |
234.7 Kb |
(ftp)(http) |
BED |
| GSE123877_muscleATAC_exeCat_peaks.bed.gz |
383.7 Kb |
(ftp)(http) |
BED |
| GSE123877_muscle_footprintCtr.bed.gz |
3.6 Mb |
(ftp)(http) |
BED |
| GSE123877_muscle_footprintExe.bed.gz |
3.3 Mb |
(ftp)(http) |
BED |
| GSE123877_muscle_footprintPGC1.bed.gz |
2.0 Mb |
(ftp)(http) |
BED |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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