Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Breast
Cell type
MDA-MB-231
Primary Tissue
Breast
Site of Extraction
Effusion, Pleural
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
DMSO_Input, MDA-MB-231
cell line
MDA-MB-231 breast cancer cells
chip antibody
input
treatment
DMSO

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cross-linked chromatin was sheared by sonication and immunoprecipitated with antibodies. DNA was purified by phenol/chloroform extraction and ethanol precipitation. NuGEN Ovation Ultralow Library Prep System kit

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
39183066
Reads aligned (%)
99.2
Duplicates removed (%)
13.9
Number of peaks
878 (qval < 1E-05)

hg19

Number of total reads
39183066
Reads aligned (%)
98.5
Duplicates removed (%)
15.4
Number of peaks
998 (qval < 1E-05)

Base call quality data from DBCLS SRA