Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
FOXA1

Cell type

Cell type Class
Prostate
Cell type
VCaP
Primary Tissue
Prostate
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
VCaP cells
cell line
Vertebral Cancer of Prostate (VCaP)
cell line origin
bone metastasis of prostate cancer
treated with
10nM R1881 for 2hr
chip antibody
FOXA1
chip antibody vendor
Abcam

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were derived from sonicated nuclei and AR-, PIAS1-, FOXA1-, Pol2 and H3K4me2-DNA complexes were isolated with 1 mg (one microgram) of antibody. ChIP-seq libraries were prepared for sequencing using standard Illumina protocol, as utilized at the Functional Genomics Unit, Helsinki, Finland, BGI Tech Solutions, Shenzhen, China or at the Gene Core in EMBL, Heidelberg, Germany.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
61952733
Reads aligned (%)
46.9
Duplicates removed (%)
50.3
Number of peaks
99154 (qval < 1E-05)

hg38

Number of total reads
61952733
Reads aligned (%)
48.0
Duplicates removed (%)
49.5
Number of peaks
95682 (qval < 1E-05)

Base call quality data from DBCLS SRA