|
| Status |
Public on Sep 07, 2014 |
| Title |
HBPALL NOTCH1 IP |
| Sample type |
SRA |
| |
|
| Source name |
HBPALL NOTCH1 IP
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Human T Cell Leukemia Cell
cell line: HBALL
antibody: NOTCH1 IP
|
| Treatment protocol |
HPB-ALL cells were fixed for 20 minutes at room temperature with 1% paraformaldehyde, quenched with a glycine containing buffer and recovered by centrifugation
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Chromatin was extracted via treatment with a triton and deoxycolate containg lysis buffer and fragmented using a bioruptor sonicator using standard procedures
SOLiD3 standard protocol
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
AB SOLiD System 3.0 |
| |
|
| Data processing |
SOLiD sofware was used for the primary data processing.
BWA
We used HOMER (Hypergeometric Optimization of Motif EnRichment) software suite48 to call peaks for HBPALL NOTCH1 ChIP-Seq data
Genome_build: hg19
Supplementary_files_format_and_content: processed data file is in bed format it contains peaks coordinates and peak score computed by HOMER software suite
|
| |
|
| Submission date |
Jun 11, 2014 |
| Last update date |
Sep 07, 2014 |
| Contact name |
Alberto Ambesi-Impiombato |
| Organization name |
Columbia University
|
| Department |
ICG
|
| Street address |
1130 St. Nicholas Avenue
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10032 |
| Country |
USA |
| |
|
| Platform ID |
GPL9442 |
| Series (1) |
| GSE58406 |
NOTCH1 ChIP-Seq in HBPALL cell lines |
|
| Relations |
| BioSample |
SAMN02850781 |
