Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
FOXA1

Cell type

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

Attributes by original data submitter

Sample

source_name
prostate cell line
cell line
LNCaP
genotype/variation
shCtrl
antibody
FOXA1 (Abcam, Cat. # ab23738, Lot # GR44102-1)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin was fixed in 1% formaldehyde, sheared to 200-700bp using a probe sonicator, immunoprecipitated using the indicated antibody or chemically labeled, purified and sequenced using Illumina Genome Analyzers following protocols recommended by the manufacturer. Libraries were prepared according to Illumina's instructions.

Sequencing Platform

instrument_model
Illumina HiScanSQ

hg19

Number of total reads
13127843
Reads aligned (%)
77.8
Duplicates removed (%)
7.3
Number of peaks
37774 (qval < 1E-05)

hg38

Number of total reads
13127843
Reads aligned (%)
78.8
Duplicates removed (%)
6.6
Number of peaks
37786 (qval < 1E-05)

Base call quality data from DBCLS SRA