Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
AR

Cell type

Cell type Class
Prostate
Cell type
C4-2
Tissue
Prostate
Cell Type
Epithelial
Disease
Prostate Cancer

Attributes by original data submitter

Sample

source_name
AR_C42_Mib
cell line
C4-2
cell type
prostate cancer cell line
treated with
10 nmol/l of mibolerone
chip antibody
AR (N-20)
chip antibody vendor
Santa Cruz

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Libraries were prepared according to Illumina's instructions accompanying the DNA Sample Kit (Part# 0801-0303). Briefly, DNA was end-repaired using a combination of T4 DNA polymerase, E. coli DNA Pol I large fragment (Klenow polymerase) and T4 polynucleotide kinase. The blunt, phosphorylated ends were treated with Klenow fragment (32 to 52 exo minus) and dATP to yield a protruding 3- 'A' base for ligation of Illumina's adapters which have a single 'T' base overhang at the 3’ end. After adapter ligation DNA was PCR amplified with Illumina primers for 15 cycles and library fragments of ~250 bp (insert plus adaptor and PCR primer sequences) were band isolated from an agarose gel. The purified DNA was captured on an Illumina flow cell for cluster generation. Libraries were sequenced on the Illumina HiSeq 2000 following the manufacturer's protocols.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
0
Reads aligned (%)
0.0
Duplicates removed (%)
49.3
Number of peaks
33998 (qval < 1E-05)

hg38

Number of total reads
0
Reads aligned (%)
0.0
Duplicates removed (%)
49.0
Number of peaks
34112 (qval < 1E-05)

Base call quality data from DBCLS SRA