Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
AR

Cell type

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

Attributes by original data submitter

Sample

source_name
Prostate cancer cell line
cell line
LNCaP
genotype
253+pGIPZ shFoxA1
knockdown rna
shFOXA1
transfected with
M253K
treatment
10nM R1881
antibody
AR
vendor
Santa Cruz
catalog number
sc-816x
lot/batch number
J216

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin in nuclear fraction were sheared to 200-500bp using an Covaris M220 Focused-ultrasonicator, Lysates were clarified from sonicated nuclei and protein-DNA complexes were immunoprecipitated by using the indicated antibody. DNA was then uncrosslinked from protein, purified and sequenced using Illumina Genome Analyzers followig protocols recommended by the manufacturer. Libraries were prepared according to Illumina's instructions.

Sequencing Platform

instrument_model
Illumina HiScanSQ

hg19

Number of total reads
36873390
Reads aligned (%)
61.8
Duplicates removed (%)
31.5
Number of peaks
47629 (qval < 1E-05)

hg38

Number of total reads
36873390
Reads aligned (%)
63.2
Duplicates removed (%)
30.4
Number of peaks
47601 (qval < 1E-05)

Base call quality data from DBCLS SRA