SRX3923527
GSM3092516: JC4250 ZR75-1 estrogen rep3 FOXA1; Homo sapiens; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
FOXA1

Cell type

Cell type Class
Breast
Cell type
ZR-75-1
Primary Tissue
Breast
Tissue Diagnosis
Adenocarcinoma Ductal

Attributes by original data submitter

Sample

source_name
ZR75-1_estrogen_rep3_FOXA1
cell line
ZR75-1
cell type
breast cancer cell line
chip antibody
anti-FOXA1 (ab5089) Abcam
treatment
hormone-deprived cells treated with estrogen

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIPseq, Schmidt et al, 2009. PMID: 19275951 phenol chloroform isoamyl DNA extraction ChIPseq, Schmidt et al, 2009. PMID: 19275939

Sequencing Platform

instrument_model
Illumina HiSeq 4000

Where can I get the processing logs?

Read processing pipeline log

hg19

Number of total reads
38694191
Reads aligned (%)
98.2
Duplicates removed (%)
24.1
Number of peaks
22785 (qval < 1E-05)

hg38

Number of total reads
38694191
Reads aligned (%)
99.1
Duplicates removed (%)
23.1
Number of peaks
22828 (qval < 1E-05)

Base call quality data from DBCLS SRA