Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

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
K562_AID-BRD4_input_DMSO
treatment
DMSO (1:5000), 60 min
cell line
K562
genetic modification
AID-BRD4 / SFFV-OsTir1-T2A-BlastR

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were cross-linked with 1% formaldehyde (10', RT). Nuclei were isolated, lysed, and chromatin was sheared by sonication. Mouse chromatin (ratio 10:1, human:mouse) was added for internal normalization. Antibodies against total Pol2, Pol2-S2p or Pol2-S5p (active motif) were added overnight at 4° and captured with magnetic sepharose beads for 2h at 4°C. Beads were washed, immune complexes eluted, and cross-links reversed for 6h at 65°C. Genomic DNA was recovered by phenol-chloroform extraction and ethanol precipitation. Deep sequencing libraries were prepared using the NEBNext Ultra II DNA Library Prep Kit for Illumina.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
37278753
Reads aligned (%)
90.2
Duplicates removed (%)
2.7
Number of peaks
1039 (qval < 1E-05)

hg19

Number of total reads
37278753
Reads aligned (%)
89.3
Duplicates removed (%)
3.5
Number of peaks
748 (qval < 1E-05)

Base call quality data from DBCLS SRA