Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
BRD4

Cell type

Cell type Class
Breast
Cell type
MCF 10A
Primary Tissue
Breast
Tissue Diagnosis
Fibrocystic Disease

Attributes by original data submitter

Sample

source_name
MCF10A breast
cell line
MCF10A
cell type
Human normal breast epithelial cells
passages
5
chip-seq antibody
BRD4 N-terminal antibody kindly provided by Prof. Cheng Ming Chiang (4 µl used)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were crosslinked with 1% Formaldehyde for 10 minutes and quenched with 1.25 M Glycine. The nuclear pellets were sonicated to the fragment range of 200-400 bp. Sonicated extracts were incubated with specific antibodies at 4˚C overnight and ChIP-immune complexes were pulled down using Protein A sepharose. Library preparations were done using NEBnext Ultra DNA library preparation kit according to the manufacturer’s instructions.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
19094280
Reads aligned (%)
73.2
Duplicates removed (%)
7.8
Number of peaks
6491 (qval < 1E-05)

hg38

Number of total reads
19094280
Reads aligned (%)
74.7
Duplicates removed (%)
6.6
Number of peaks
6564 (qval < 1E-05)

Base call quality data from DBCLS SRA