|
Status |
Public on Sep 07, 2014 |
Title |
HBPALL Whole Cell Extract |
Sample type |
SRA |
|
|
Source name |
HBPALL Whole Cell Extract
|
Organism |
Homo sapiens |
Characteristics |
cell type: Human T Cell Leukemia Cell cell line: HBALL antibody: none, Whole Cell Extract (Control)
|
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 |
SAMN02850778 |