|
| Status |
Public on Feb 16, 2022 |
| Title |
H3K27ac ChIP-Seq in ERRg KO1 |
| Sample type |
SRA |
| |
|
| Source name |
ERRgamma KO hiPSC-CMs
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: hiPSC-derived cardioyocytes
day: D22
genotype: ERRgamma
chip antibody: H3K27ac (Abcam, ab4729)
|
| Growth protocol |
hiPSC were cultured in TeSR-E8 (StemCell Technologies) and differentiated toward cardiomyocytes with the method published by Dr. Joseph Wu (Nat Methods. 2014 Aug;11(8):855-60. PMID: 24930130). ERRg KO iPSCs were generated by pSpCas9n(BB)-2A-Puro plasmids (PX462, Addgene plasmid # 48141) containing distinct sgRNAs against ERRg.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were clarified from sonicated nuclei and H3K27a-DNA complexes were isolated with H3K27ac antibody.
Libraries were prepared according to NuGen The Ovation® Ultralow Library System V2 (Part# 0801-0303) with 2 mg DNA sample.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
H3K27ac occupancy
|
| Data processing |
ChIP-seq reads were aligned to the hg38 genome assembly using Bowtie2
Peaks were called using findPeaks command in the Homer package
Genome_build: hg38
Supplementary_files_format_and_content: bw
|
| |
|
| Submission date |
Feb 02, 2021 |
| Last update date |
Feb 16, 2022 |
| Contact name |
Tomoya Sakamoto |
| Organization name |
University of Pennsylvania
|
| Department |
Cardiovascular Institute
|
| Lab |
Daniel Kelly lab
|
| Street address |
Smilow Center for Translational Research 11th FL (Room 11-172) 3400 Civic Center Blvd Bldg 421
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (2) |
| GSE165965 |
Genome-wide acetylation of histone 3 at lysine residuce (H3K27ac) deposition in human iPS cell-derived cardiomyocytes (hiPSC-CMs) |
| GSE166064 |
The Nuclear Receptor ERR Cooperates with the Cardiogenic Factor GATA4 to Orchestrate Transcriptional Control of Cardiac Maturation |
|
| Relations |
| BioSample |
SAMN17736325 |
| SRA |
SRX10003026 |
