Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me1

Cell type

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

Attributes by original data submitter

Sample

source_name
LNCaP MYC cells
cell line
c-Myc overexpressing LNCaP
antibody
anti-H3K4me1, diagenode (pAb-194-050)
agent
R1881

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, see study for more information. Libraries were prepared according to published instructions for the ChIP-exo libraries (AR/MYC, see study for details) and Illumina's instructions accompanying the TruSeq library preparation kit for the histone ChIP-seqs.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
45552303
Reads aligned (%)
99.5
Duplicates removed (%)
10.3
Number of peaks
67857 (qval < 1E-05)

hg19

Number of total reads
45552303
Reads aligned (%)
99.0
Duplicates removed (%)
10.7
Number of peaks
69791 (qval < 1E-05)

Base call quality data from DBCLS SRA