Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Neural
Cell type
D425
NA
NA

Attributes by original data submitter

Sample

source_name
D425
cell type
D425 tolerant
treatment
JQ1
ip antibody
H3K4me3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Sensitive and drug-tolerant D425 and D458 were passaged in DMSO or JQ1 (1 µM) for 24 hours. Sheared chromatin from each cell line was subjected to ChIP-sequencing as previously described62 , enriching for H3K27ac (Cell Signaling Technologies, 8173S)), H3K4me3 (Cell Signaling Technologies, 9751S), Histone H3 (Cell Signaling 4499S) and BRD4 (Bethyl, A301-985A100). ChIP libraries were indexed, pooled and sequenced on Illumina Hi-seq-2000 sequencers.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
31814165
Reads aligned (%)
98.1
Duplicates removed (%)
6.8
Number of peaks
39682 (qval < 1E-05)

hg19

Number of total reads
31814165
Reads aligned (%)
97.6
Duplicates removed (%)
6.9
Number of peaks
39430 (qval < 1E-05)

Base call quality data from DBCLS SRA