Antigen

Antigen Class

DNase-seq

Antigen

DNase-Seq

Cell type

Cell type Class

Breast

Cell type

MDA-MB-231

Primary Tissue

Breast

Site of Extraction

Effusion, Pleural

Tissue Diagnosis

Adenocarcinoma

Sample

source_name

MDA-MB-231

datatype

DnaseSeq

cell line

MDA-MB_231

cell karyotype

breast cancer

treatment

BMP4 (100 ng/ml)

treatment description

3 hours treatment with BMP4 (100 ng/ml)

Sequenced DNA Library

library_strategy

DNase-Hypersensitivity

library_source

GENOMIC

library_selection

DNase

library_construction_protocol

The nuclei were extracted using protocol similar to Song and Crawford 2010 and the DNase I digestion was done according to Ling and Waxman 2013. The library preparation was done according to library construction protocol of BGI

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg38

Number of total reads

70714004

Reads aligned (%)

99.0

Duplicates removed (%)

23.3

Number of peaks

66581 (qval < 1E-05)

hg19

Number of total reads

70714004

Reads aligned (%)

98.2

Duplicates removed (%)

25.9

Number of peaks

65899 (qval < 1E-05)