Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
HOXB13

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 cancer cells, siCtl, HOXB13 ChIP
cell line
VCaP
cell type
prostate cancer cell line
sirna
siCtl
passage
< 25
chip antibody
HOXB13 (Santa Cruz Biotechnology cat. sc-66923)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Genomic DNA was extracted following sonication, clearing of lysates, and immunoprecipitation of protein/DNA complexes. Libraries were constructed using Rubicon Thruplex FD kit using manufacturer's recommended protocol.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
31800708
Reads aligned (%)
89.9
Duplicates removed (%)
5.8
Number of peaks
21952 (qval < 1E-05)

hg38

Number of total reads
31800708
Reads aligned (%)
91.4
Duplicates removed (%)
4.7
Number of peaks
21921 (qval < 1E-05)

Base call quality data from DBCLS SRA