Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CHD8

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
T47D-MTVL
cell line
Cell line derived from T47D that contain one copy of MMTV promoter
chip antibody
anti-CHD8 (A301-224A, Bethyl Laboratories)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
After 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 Libraries were prepared according to Illumina's instructions.

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
30238975
Reads aligned (%)
79.8
Duplicates removed (%)
8.7
Number of peaks
2348 (qval < 1E-05)

hg38

Number of total reads
30238975
Reads aligned (%)
81.2
Duplicates removed (%)
7.7
Number of peaks
2206 (qval < 1E-05)

Base call quality data from DBCLS SRA