Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
FOXA1

Cell type

Cell type Class
Breast
Cell type
Breast cancer cells
NA
NA

Attributes by original data submitter

Sample

source_name
Patient derived xenograft, breast cancer
tissue
tumor tissue
chip antibody
FOXA1
chip antibody vendor
abcam,abcam

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Tumors were harvested, flash frozen and sectioned. Chromatin was extracted using an SDS based sonication protocol and immunoprecipitated. DNA libraries were prepared using Swift Accel-NGS 2S Plus kit in an automated platform

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
21988891
Reads aligned (%)
177.9
Duplicates removed (%)
6.0
Number of peaks
1909 (qval < 1E-05)

hg38

Number of total reads
21988891
Reads aligned (%)
179.1
Duplicates removed (%)
5.9
Number of peaks
1933 (qval < 1E-05)

Base call quality data from DBCLS SRA