Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27ac

Cell type

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

Attributes by original data submitter

Sample

source_name
LNCaP95
cell line
LNCaP95
transfection
shARv7
treatment
10nM DHT
antibody
H3K27ac

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Approximately 10^7 cells were cross-linked with 1% formaldehyde for 10min. Lysed cells were sonicated in a Covaris E210 sonicator. Sheared chromatin was incubated with antibodies over night and immunoprecipitated using Dynabeads Protein A (Life Technologies). Chromatin was treated with RNaseA and Protease K and purified using phenol-chloroform extraction. Sequencing libraries were generated according to manufacturer's instructions (ThruPLEX DNA-seq Kit, Rubicon Genomics) and then sequenced on the Illumina NextSeq 500 platform

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
23700703
Reads aligned (%)
97.8
Duplicates removed (%)
4.1
Number of peaks
3154 (qval < 1E-05)

hg19

Number of total reads
23700703
Reads aligned (%)
96.9
Duplicates removed (%)
5.7
Number of peaks
3080 (qval < 1E-05)

Base call quality data from DBCLS SRA