Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

Cell type

Cell type Class
Breast
Cell type
SK-BR-3
Primary Tissue
Breast
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
pSKBr3 cells parental sensitive
treatment
untreated
factor chip
ERRalpha
tissue of origin
breast
cell line
pSKBr3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were extracted from sonicated 1% formaldehyde-crosslinked nuclei and histone-DNA complexes were isolated with ERRalpha antibody. DNA was purified using QIAquick PCR Purification Kit. Libraries were prepared using the Illumina TruSeq ChIP Library Prep Kit Libraries were prepared at McGill University and Génome Québec Innovation Centre according to the Illumina TruSeq ChIP Library Prep Kit

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
71211082
Reads aligned (%)
96.9
Duplicates removed (%)
4.2
Number of peaks
7956 (qval < 1E-05)

hg19

Number of total reads
71211082
Reads aligned (%)
95.7
Duplicates removed (%)
5.7
Number of peaks
7683 (qval < 1E-05)

Base call quality data from DBCLS SRA