|
| Status |
Public on Oct 01, 2015 |
| Title |
MCF7 ER ChIP-seq E2 HOTAIR |
| Sample type |
SRA |
| |
|
| Source name |
prostate tumor
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MCF7
transgene: HOTAIR
treatment: E2
antibody: ER
|
| Treatment protocol |
Chromatin was fixed in 1% formaldehyde, sheared to 200-700bp using an ultrasonic sonicator (Misonix), immunoprecipitated using the indicated antisera, purified and sequenced using Illumina Genome Analyzers followig protocols recommended by the manufacturer.
|
| Growth protocol |
Cell lines were maintained in DMEM supplemented with 10% FBS, then starved with hormone-free media (FCS) and treated with EtOH or E2.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Libraries were prepared according to Illumina's instructions.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiScanSQ |
| |
|
| Description |
Chromatin IP against ER
|
| Data processing |
Reads were aligned to the hg19 reference human genome using bwa v0.6.1
Peak-calling by HOMER v4.1
Genome_build: hg19
Genome_build: hg19
Supplementary_files_format_and_content: bedGraph file
|
| |
|
| Submission date |
Jul 23, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Jindan Yu |
| E-mail(s) |
[email protected]
|
| Organization name |
Emory University
|
| Department |
Urology
|
| Lab |
Jindan Yu's lab
|
| Street address |
E330, 1760 Haygood Dr NE
|
| City |
Atlanta |
| State/province |
GA |
| ZIP/Postal code |
30322 |
| Country |
USA |
| |
|
| Platform ID |
GPL15456 |
| Series (2) |
| GSE71276 |
LncRNA HOTAIR enhances ER signaling and confers tamoxifen resistance in breast cancer [ChIP-Seq] |
| GSE71298 |
LncRNA HOTAIR enhances ER signaling and confers tamoxifen resistance in breast cancer |
|
| Relations |
| BioSample |
SAMN03897342 |
| SRA |
SRX1116525 |
