Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
E2F1

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 cells
cell line
LNCaP-abl
cell type
androgen-independent prostate cancer cells
passages
61-64
chip antibodies
Santa Cruz Biotechnology (sc-193) and BD Pharmingen (554213)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and protein-DNA complexes were isolated with specific antibodies. Libraries were prepared using ThruPLEX-FD Prep Kit (Rubicon Genomics). The purified DNA was captured on an Illumina flow cell for cluster generation. Libraries were sequenced on the Illumina NextSeq 500 system following the manufacturer's protocols.

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
107547576
Reads aligned (%)
58.8
Duplicates removed (%)
33.4
Number of peaks
22665 (qval < 1E-05)

hg38

Number of total reads
107547576
Reads aligned (%)
61.0
Duplicates removed (%)
31.6
Number of peaks
23745 (qval < 1E-05)

Base call quality data from DBCLS SRA