|
| Status |
Public on Jun 30, 2013 |
| Title |
AngII_H3K4me3_ChIPseq |
| Sample type |
SRA |
| |
|
| Source name |
vascular smooth muscle cells, AngII-stimulated, H3K4me3 ChIP
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: Sprague-Dawley
cell type: cultured primary vascular smooth muscle cells (VSMCs)
treatment: angiotensin II (AngII)
chip antibody: H3K4me3
antibody vendor: Millipore
antibody catalog #: 04-475
|
| Treatment protocol |
Cells were starved overnight of fetal bovine serum and treated with AngII (0.1uM) for 3 hours.
|
| Growth protocol |
Primary VSMCs were isolated from thoracic aortas and cultured in M199 media supplemented with antibiotics and fetal bovine serum.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Standard phenol/chloroform was used to extract DNA. DNA was end repaired (Epicentre #ER81050), A-tailed (NEB #m0212l), ligated to Illumina adapters (Promega Cat#M8221), and PCR amplified (NEB Cat# M0531L). Adapter-ligated, amplified fragments were selected from an agarose gel.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Data processing |
ChIP-seq: Reads were aligned to the rn4 version of the rat genome using Bowtie. RSEG was used to identify regions of enriched H3K4me3 and H3K36me3.
Genome_build: rn4
Supplementary_files_format_and_content: ChIP-seq: RSEG output file: bed file with score.
|
| |
|
| Submission date |
May 18, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Amy Leung |
| Organization name |
Beckman Research Institute, City of Hope
|
| Department |
Diabetes/Cancer
|
| Lab |
Schones
|
| Street address |
1500 E. Duarte Rd
|
| City |
Duarte |
| ZIP/Postal code |
91010 |
| Country |
USA |
| |
|
| Platform ID |
GPL10287 |
| Series (1) |
| GSE38056 |
Novel long non-coding RNAs are involved in cellular response to angiotensin II signaling |
|
| Relations |
| SRA |
SRX148694 |
| BioSample |
SAMN00996635 |
