Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ERG

Cell type

Cell type Class
Blood
Cell type
TSU-1621MT
NA
NA

Attributes by original data submitter

Sample

source_name
TSU-1621-MT_ChIP ERG 1/2/3 ATRA
cell line
TSU-1621-MT
treated with
1 uM ATRA for 24 hrs
antibody target
ERG
chip antibody vendor
Santa Cruz

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin was sonicated and used for ChIP seq using specific antibodies. RNA was extracted using qiagen RNeasy kit according to manufacturer instructions and total RNA was treated using Ribo-zero to remove rRNA according to manufacturer instructions. ChIP seq and RNA-seq libraries were prepared according to Illumina's standard protocol.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
48487772
Reads aligned (%)
33.4
Duplicates removed (%)
65.8
Number of peaks
46843 (qval < 1E-05)

hg38

Number of total reads
48487772
Reads aligned (%)
34.5
Duplicates removed (%)
64.9
Number of peaks
46957 (qval < 1E-05)

Base call quality data from DBCLS SRA