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
ChIP_H3K27ac_Input
cell line
MDA-MB231
cell type
breast cancer cells
genotype/variation
EV-control
chip antibody
None

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP, unfixed cells were clarified after enzymmatically digesting and lysing cells, then histone-DNA complexes were isolated with antibody. Libraries were prepared with Illumina's NEXTERA XT DNA library prep kit

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
41972007
Reads aligned (%)
85.6
Duplicates removed (%)
7.7
Number of peaks
798 (qval < 1E-05)

hg19

Number of total reads
41972007
Reads aligned (%)
84.8
Duplicates removed (%)
9.1
Number of peaks
599 (qval < 1E-05)

Base call quality data from DBCLS SRA