Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

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
MDA-MB-231 breast cancer cell line
cell line
MDA-MB-231
cell type
mammary gland/breast epithelial cell
target molecule
H3K27ac

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed in 1% formaldehyde for 10 min. Chromatin was prepared and immunoprecipitated as previously described (Greer CB, Tanaka Y, Kim YJ, Xie P, Zhang MQ, Park IH, Kim TH: Histone Deacetylases Positively Regulate Transcription through the Elongation Machinery. Cell Rep 2015, 13(7):1444-1455.). DNA libraries were prepared using ThruPLEX DNA-seq Kit (Takara)

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
15623738
Reads aligned (%)
94.6
Duplicates removed (%)
9.8
Number of peaks
13204 (qval < 1E-05)

hg19

Number of total reads
15623738
Reads aligned (%)
94.0
Duplicates removed (%)
11.3
Number of peaks
13157 (qval < 1E-05)

Base call quality data from DBCLS SRA