Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
FOXA1

Cell type

Cell type Class
Breast
Cell type
MCF-7
Primary Tissue
Breast
Site of Extraction
Pleura
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
MCF7-WM-E2-FOXA1
cell line
MCF7 breast carcinoma cell line
agent
Estrogen
chip antibody
FOXA1 (ab5089 Abcam, ab23738 Abcam)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin was extracted with a sarkosyl based buffer and sonicated to a size range of 200-300 bp DNA sequencing libraries were prepared using the ThruPLEX-FD Prep Kit (Takara Bio USA)

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
38433102
Reads aligned (%)
97.7
Duplicates removed (%)
5.1
Number of peaks
26027 (qval < 1E-05)

hg19

Number of total reads
38433102
Reads aligned (%)
96.9
Duplicates removed (%)
6.4
Number of peaks
25775 (qval < 1E-05)

Base call quality data from DBCLS SRA