Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Prostate
Cell type
PC-3
Primary Tissue
Prostate
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
PC3
cell line
PC3
tissue
Prostate cell line
chip antibody
NONE
treatment
DMSO

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed with formaldehyde and lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Barcoded sequencing libraries were generated using KAPA Library Preparation Kits (Kapa Biosystems) according to the manufacturer's protocol. Libraries were quantified using a qPCR-based quantification (Kapa Biosystems).

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
27869621
Reads aligned (%)
97.6
Duplicates removed (%)
12.7
Number of peaks
2557 (qval < 1E-05)

hg19

Number of total reads
27869621
Reads aligned (%)
96.7
Duplicates removed (%)
13.8
Number of peaks
2518 (qval < 1E-05)

Base call quality data from DBCLS SRA