Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TRIM28

Cell type

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

Attributes by original data submitter

Sample

source_name
prostate
cell type
Prostate cancer cell line LNCaP
procedure
Chromatin IP against TRIM28
chip antibody
TRIM28 (ab10483; Abcam)

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. Embo Mol Med 2015) For each ChIP, 5-10μg of antibody prebound to protein A or protein G beads was used. 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
21389027
Reads aligned (%)
90.4
Duplicates removed (%)
4.3
Number of peaks
1050 (qval < 1E-05)

hg38

Number of total reads
21389027
Reads aligned (%)
93.2
Duplicates removed (%)
2.2
Number of peaks
1093 (qval < 1E-05)

Base call quality data from DBCLS SRA