Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

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

Attributes by original data submitter

Sample

source_name
cell line LNCaP
androgen_treatment
Y
hypoxia_treatment
N
chip antibody
pAb 003-050
target protein
H3K4me3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Genomic DNA was isolated using phenol:chloroform:isopropanol (25:24:1, Invitrogen), back-extracted with 200ul of TE, precipitated with isopropanol, washed with 75% ethanol, air-dried and resuspended in 60ul 10mM Tris-HCl pH 8. TruSeq ChIP kit from Illumina

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
34931448
Reads aligned (%)
98.6
Duplicates removed (%)
12.7
Number of peaks
26550 (qval < 1E-05)

hg19

Number of total reads
34931448
Reads aligned (%)
98.0
Duplicates removed (%)
13.6
Number of peaks
26499 (qval < 1E-05)

Base call quality data from DBCLS SRA