Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
XBP1

Cell type

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

Attributes by original data submitter

Sample

source_name
LNCaP wildtype
cell line
LNCaP prostate cancer cells
genotype
wildtype
treatment
Tg
chip antibody
XBP1s (Biolegend, 619502)
wz_id
wz1410

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin immunoprecipitations (ChIP) were performed as described (Stelloo et al. Oncogene 2018) For each ChIP, 7.5μg of XBP1s antibody or 5μg of RNA polII Ser2 antibody prebound to protein A beads were used. In brief, Nuclear lysates were incubated with 5ug of RNA polymerase Serine 2 phosphorylation antibody (Abcam, ab5095) and 50ul protein A beads. Immunoprecipitated DNA was processed for library preparation (Part# 0801-0303, KAPA biosystems kit). Libraries were prepared according to Illumina's instructions accompanying the DNA Sample Kit (Kapa Biosystems kit,KK8234).

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
32364586
Reads aligned (%)
91.7
Duplicates removed (%)
4.8
Number of peaks
12679 (qval < 1E-05)

hg38

Number of total reads
32364586
Reads aligned (%)
93.9
Duplicates removed (%)
3.6
Number of peaks
12878 (qval < 1E-05)

Base call quality data from DBCLS SRA