|
| Status |
Public on Oct 16, 2015 |
| Title |
MDA_MB_453_ARChIPseq_Vehicle1 |
| Sample type |
SRA |
| |
|
| Source name |
Mammary gland/breast metastatic carcinoma
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MDA_MB_453
gender: female
chip antibody: AR (Santa Cruz Biotech, N-20, sc-816)
|
| Treatment protocol |
Cells were treated for 4 hours with vehicle control (ethanol), 5α-dihydrotestosterone (DHT; 10nM) or medroxyprogesterone acetate (MPA; 10nM).
|
| Growth protocol |
Cells were maintained in DMEM, 10% foetal calf serum, prior to harvesting cells were estrogen starved for three days with daily media changes.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
ChIP-seq was carried out as described by Schmidt et al. Methods 48, 240-8 (2009)
Tru-seq libraries were prepared and sequenced by Illumina sequencing.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Single-end 36bp reads were generated by the Illumina HiSeq 2000 and aligned against the Human Reference Genome (NCBI Build 36.6) using BWA version 0.5.5. Reads were filtered by removing those with a BWA alignment quality score less than 15 as well as duplicate reads.
Enriched regions of the genome were identified by comparing ChIP samples to input samples using MACS Version 1.3.7.1
Genome_build: GRCh36
Supplementary_files_format_and_content: Consensus peaks in TXT format
|
| |
|
| Submission date |
Oct 15, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Kerstin Meyer |
| Organization name |
University of Cambridge
|
| Department |
Cancer Research UK Cambridge Institute
|
| Street address |
Robinson Way
|
| City |
Cambridge |
| ZIP/Postal code |
CB2 0RE |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE74069 |
ChIP-seq of the androgen receptor (AR) in MDAMB453 cells after androgen stimulation |
|
| Relations |
| BioSample |
SAMN04168597 |
| SRA |
SRX1339015 |
