Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

Cell type

Cell type Class
Blood
Cell type
Acute T cell leukemia
NA
NA

Attributes by original data submitter

Sample

source_name
T lymphocyte
disease
acute T cell leukemia
germ layer
Mesoderm

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Nuclear lysates were sonicated using a Branson 250 Sonifier (power setting 2, 100% duty cycle for 7 x 30-s intervals). Clarified lysates corresponding to 20 million cells were treated with 1-5ug of antibody against H3K27ac [Abcam #4729]) coupled to Protein G Dynabeads (Life Technologies #10003D, New York). The protein-DNA complexes were washed with RIPA buffer and eluted in 1% SDS TE at 65 °C ChIP DNA sequencing libraries were generated according to Illumina DNA  TruSeq DNA Sample Preparation Kit Instructions (Illumina Part # FC-121-2001, San Diego,  CA).

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
47200786
Reads aligned (%)
98.4
Duplicates removed (%)
5.4
Number of peaks
33312 (qval < 1E-05)

hg19

Number of total reads
47200786
Reads aligned (%)
97.7
Duplicates removed (%)
5.7
Number of peaks
32160 (qval < 1E-05)

Base call quality data from DBCLS SRA