Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ERG

Cell type

Cell type Class
Breast
Cell type
BT-474
Primary Tissue
Breast
Site of Extraction
Soft Tissue
Tissue Diagnosis
Adenocarcinoma Ductal

Attributes by original data submitter

Sample

source_name
BT-474 human breast cancer cell line treated with vehicle for 90 minutes
tissue
Breast tumor cell line
chip antibody
ERRg antibody (custom antibody, Dr. Ron Evans lab)
chip-antibody
genomic DNA enriched following ERRgamma chromatin immunoprecipitation

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
After 90min following media renewal, nuclei were isolated and subjected to chromatin immunoprecipitation. Following ERRgamma ChIP, genomic DNA was purified with QIAGEN DNA extraction kit. Libraries were performed at the Génome Québec Innovation Centre (McGill University) using standard protocol for HiSeq - Illumina Single reads 50bp sequencing lane

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
44010358
Reads aligned (%)
86.9
Duplicates removed (%)
6.4
Number of peaks
5056 (qval < 1E-05)

hg38

Number of total reads
44010358
Reads aligned (%)
89.3
Duplicates removed (%)
4.8
Number of peaks
5078 (qval < 1E-05)

Base call quality data from DBCLS SRA