Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
MED1

Cell type

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

Attributes by original data submitter

Sample

source_name
VCaP (prostate)
chip antibody
Med1
cell line
VCaP
treatment
R1881

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For chromatin immunoprecipitation experiments with subsequent sequencing (ChIP-seq), three replicates of eight million cells were seeded in 15-cm plates and treated with 2 µM darolutamide plus 1 nM R1881 for 22 h, subsequently fixed for ten minutes with 1% formaldehyde and processed as described previously (Baumgart et al. Nucleic Acids Res. 2017 Jul 27;45(13):7722-7735) Library preparation was done as described by the manufacturer (MicroPlex Library Preparation Kit v2; Diagenode SA, Seraing, Belgium). The libraries were sequenced on a HiSeq2500 Illumina machine with 50 base pair, single-end reads to an average depth of 25–30 million reads per sample.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
34030947
Reads aligned (%)
71.5
Duplicates removed (%)
27.0
Number of peaks
7397 (qval < 1E-05)

hg38

Number of total reads
34030947
Reads aligned (%)
73.3
Duplicates removed (%)
25.7
Number of peaks
7477 (qval < 1E-05)

Base call quality data from DBCLS SRA