Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
PARP1

Cell type

Cell type Class
Breast
Cell type
T-47D
Primary Tissue
Breast
Tissue Diagnosis
Adenocarcinoma Ductal

Attributes by original data submitter

Sample

source_name
Breast cancer cell line
chip antibody
PARP1
time
0 min
cell line
T47D-MTVL
treatment
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
After hormone treatment, the medium was replaced by medium containing 1% formaldehyde and incubated 10 min at 37ºC for cross-linking. The reaction was stop by adding 125 mM glycine and incubated 5 min at room temperature. Cells were washed twice with cold PBS, and collected. Preparation of chromatin and ChIP experiments were performed as previously described (Strutt et al, Methods Mol Biol. 1999; 119:455-567). Immunoprecipitated DNA was purified by phenol:chloroform followed by ethanol precipitation It was performed using the NEBNext DNA sample prep Reagents set 1

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
74919362
Reads aligned (%)
46.8
Duplicates removed (%)
50.0
Number of peaks
1503 (qval < 1E-05)

hg38

Number of total reads
74919362
Reads aligned (%)
48.9
Duplicates removed (%)
48.2
Number of peaks
1662 (qval < 1E-05)

Base call quality data from DBCLS SRA