Antigen

Antigen Class

TFs and others

Antigen

AR

Cell type

Cell type Class

Prostate

Cell type

LNCAP

Primary Tissue

Prostate

Tissue Diagnosis

Carcinoma

Sample

source_name

LNCaP_anti-AR

cell line

LNCaP

chip antibody

Santa Cruz sc-816 X

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

LNCaP cells were seeded at 3x10^6 cells/plate in 15cm plates in RMPI 1640 + 10% FBS and allowed to grow for 3 days prior to fixation with formaldehyde. Nuclear pellets were sonicated on ice for 10 cycles (30 sec on, 30 sec off) using a Diagenode Bioruptor. Lysates were immunoprecipitated with 4 ug GRHL2 antibody (Sigma HPA004820) or 5 ug AR antibody (Santa Cruz N20 ), which had been pre-coupled to Protein G Dynabeads (Life Technologies, 10004D). DNA was purified using a PCR purification kit (Qiagen) and eluted in 100 µl. Libraries were prepared according to Illumina's instructions accompanying the TruSeq ChIP Library Prep Kit

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

70203858

Reads aligned (%)

90.2

Duplicates removed (%)

11.5

Number of peaks

4088 (qval < 1E-05)

hg19

Number of total reads

70203858

Reads aligned (%)

89.1

Duplicates removed (%)

13.5

Number of peaks

2813 (qval < 1E-05)