Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Prostate
Cell type
LNCAP
Primary Tissue
Prostate
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
LNCaP
cell line
LNCaP
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
24069215
Reads aligned (%)
97.9
Duplicates removed (%)
7.8
Number of peaks
1932 (qval < 1E-05)

hg19

Number of total reads
24069215
Reads aligned (%)
97.0
Duplicates removed (%)
9.0
Number of peaks
1848 (qval < 1E-05)

Base call quality data from DBCLS SRA