Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Prostate

Cell type

LNCAP

Primary Tissue

Prostate

Tissue Diagnosis

Carcinoma

Sample

source_name

cultured LNCaP prostate cancer cells

cell line

LNCaP

cell type

prostate cancer cells

genotype/variation

expressing pLVX (empty vector)

cultured with

doxycycline for 4 days

chip antibody

IgG

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

After formaldehyde fixation, lysed cell DNA was sheared by sonication and immunoprecipitated with an anti-NANOG antibody (Santa Cruz, H-155) vs IgG control and protein-A beads overnight. ChIP libraries were prepared for sequencing using standard Illumina protocols

Sequencing Platform

instrument_model

Illumina Genome Analyzer II

hg38

Number of total reads

22476834

Reads aligned (%)

87.5

Duplicates removed (%)

11.5

Number of peaks

1665 (qval < 1E-05)

hg19

Number of total reads

22476834

Reads aligned (%)

86.6

Duplicates removed (%)

12.1

Number of peaks

2314 (qval < 1E-05)