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
LNCaP_AR
cell line background
LNCaP
cell type
Immortalised prostate cancer cell line
passages
15-30
genotype/variation
expressing AR-V7 in response to doxycycline (LNCaP AR-V7)
treatment
10uM R1881 for 24 hrs
chip antibody
AR antibody (RRID: AB_2793341)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Biological replicates of LNCaP AR-V7 cells treated with 10uM R1881 or 20ng/mL for 24 hours were formaldehyde fixed and and pooled together. Nuclear extracts were prepared in a water bath sonicator and DNA-protein complexes were isolated with AR antibody and Protein A/G Magnetic Agarose. ChIP-exo libraries were prepared using ChIP-exo Kit from ActiveMotif following manufacturer's instructions. Libraries were sequenced on Illumina HiSeq 2500 following the manufacturer's protocols. Libraries were constructed using ChIP-exo library preparation kit (ActiveMotif, USA) following the manufacturer's instructions. cDNA libraries were sequenced on the Illumina HiSeq 2500 platform by ActiveMotif, USA.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
37234283
Reads aligned (%)
94.6
Duplicates removed (%)
18.7
Number of peaks
55401 (qval < 1E-05)

hg19

Number of total reads
37234283
Reads aligned (%)
94.0
Duplicates removed (%)
19.5
Number of peaks
55128 (qval < 1E-05)

Base call quality data from DBCLS SRA