|
| Status |
Public on Mar 16, 2013 |
| Title |
TCF7L2 ChIP-seq, 16h DHT treatment |
| Sample type |
SRA |
| |
|
| Source name |
TCF7L2 ChIP-seq, 16h DHT treatment
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MDA-MB-453
cell type: breast cancer
chip antibody: sc-8631 Santa Cruz
|
| Treatment protocol |
The MDA-MB-453 cells were grown in the phenol red-free medium supplemented with 5% charcoal/dextran-treated fetal bovine serum for 3 days, followed by treatment of vehicle or 10 nM DHT for the indicated time.
|
| Growth protocol |
The MDA-MB-453 cells were maintained in DMEM supplemented with 10% fetal bovine serum at 37oC incubator
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were clarified from sonicated cells and the transcription factor-bound complexes were isolated with antibody.
Libraries were prepared according to Illumina's instructions with 10 ng of ChIP-DNA.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
ChIP-seq data
|
| Data processing |
Basecalls performed using CASAVA version 1.9
ChIP-seq reads were aligned to the hg18 genome assembly using Bowtie-0.12.7
peaks were called using MACS2
Genome_build: hg18
Supplementary_files_format_and_content: peak files represent the boundary of each ChIP-enriched region are in the BED format
|
| |
|
| Submission date |
Mar 15, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Yiwen Chen |
| E-mail(s) |
ychen26@mdanderson.org
|
| Organization name |
University of Texas MD Anderson Cancer Center
|
| Department |
Bioinformatics and Computational Biology
|
| Lab |
Yiwen Chen
|
| Street address |
1400 Pressler Street
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77030 |
| Country |
USA |
| |
|
| Platform ID |
GPL11154 |
| Series (2) |
| GSE45201 |
Amplitude modulation of androgen signaling by c-MYC [ChIP-Seq] |
| GSE45203 |
Amplitude modulation of androgen signaling by c-MYC |
|
| Relations |
| SRA |
SRX250094 |
| BioSample |
SAMN01978923 |
