Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
BRD2

Cell type

Cell type Class
Blood
Cell type
CD4+ T cells
NA
NA

Attributes by original data submitter

Sample

source_name
TcellsCD4+
cell line
none
inhibitor treatment
iBET-BD1
stimulation
anti-CD3/CD28
stimulation protocol
4 hours of anti CD3/CD8 after 30 minutes of pretreatment
antibody
BRD2(D89B4;Cell Signalling;5848S;lot 3)
replicate
1

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
20 million cells were crosslinked for 15 mins with 1% formaldehyde. Crosslinked material was sonicated to ~200–1000 bp using the Covaris Ultrasonicator e220. Sonicated material was incubated overnight with each antibody, then incubated for 3 h with Protein A magnetic beads. Beads were washed with low and high salt wash buffers, LiCl buffer and TE, before being eluted and decrosslinked overnight. DNA was purified using Qiagen Minelute columns. All ChIP antibodies were used at ~10μg per IP Sequencing libraries were prepared from eluted DNA using Rubicon ThruPLEX DNA- seq kit. Libraries were size selected between 200–500 bps

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
13959816
Reads aligned (%)
75.6
Duplicates removed (%)
12.8
Number of peaks
523 (qval < 1E-05)

hg38

Number of total reads
13959816
Reads aligned (%)
77.1
Duplicates removed (%)
11.7
Number of peaks
508 (qval < 1E-05)

Base call quality data from DBCLS SRA