|
| Status |
Public on Feb 01, 2012 |
| Title |
HIF-1beta |
| Sample type |
SRA |
| |
|
| Source name |
786-O clear cell renal carcinoma cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: 786-O clear cell renal carcinoma cells
chip antibody: HIF-1beta (Novus Biologicals, NB100-110)
|
| Treatment protocol |
Fixed with 1% formaldehyde for 10 minutes at 25 C, followed by 125 mM Glycine for 5 minutes at 25 C.
|
| Growth protocol |
786-O cells were purchased from ATCC. Cell lines were grown in Dulbecco’s modified Eagle’s Medium, 100U/ml penicillin, 100μg/ml streptomycin and 10% fetal bovine serum (Sigma).
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were clarified from sonicated whole cells and immunoprecipitated with andtibodies against HIF-2a (PM9), HIF-1beta (Novus Biologicals, NB100-110), or pre-immune serum. Libraries were prepared from immunoprecipitated chromatin using the Illumina ChIP-Seq kit.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Description |
ChIP DNA
|
| Data processing |
5472_HIF1B_hg18.bigWig; genome build: hg18
Sequences were mapped to NCBI build 36 (hg18) using ELAND software. Subsequent assessment, 2-sample peak finding, motif analysis, and mapping of RCGTG motifs were undertaken using the CisGenome software suite (http://www.biostat.jhsph.edu/~hji/cisgenome/)
|
| |
|
| Submission date |
Jan 05, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
David Robert Mole |
| E-mail(s) |
[email protected]
|
| Phone |
0044 (0)1865 613956
|
| Organization name |
University of Oxford
|
| Department |
Nuffield Department of Medicine
|
| Lab |
NDM Research Building
|
| Street address |
Roosevelt Drive, Headington
|
| City |
Oxford |
| ZIP/Postal code |
OX3 7FZ |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL9115 |
| Series (1) |
| GSE34871 |
Genome-wide mapping of HIF-2 binding in 786-O clear cell renal carcinoma cells |
|
| Relations |
| SRA |
SRX114494 |
| BioSample |
SAMN00769882 |
| Named Annotation |
GSM856791_5472_HIF1B_hg18.bigWig |
