Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
BRD3

Cell type

Cell type Class
Blood
Cell type
K-562
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Chronic Myelogenous

Attributes by original data submitter

Sample

source_name
erythroleukaemia
cell line
K562
inhibitor treatment
iBET-BD1
stimulation
IFNγ
stimulation protocol
6 hours of 10ng/mL IFNγ after 1 hour of pretreatment with BET inhibitor
antibody
BRD3(Bethyl; A302-368A)
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
21729206
Reads aligned (%)
74.5
Duplicates removed (%)
23.1
Number of peaks
7864 (qval < 1E-05)

hg38

Number of total reads
21729206
Reads aligned (%)
75.2
Duplicates removed (%)
22.5
Number of peaks
7896 (qval < 1E-05)

Base call quality data from DBCLS SRA