Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Blood
Cell type
Jurkat
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Acute Lymphocytic

Attributes by original data submitter

Sample

source_name
Jurkat cell
cell type
Jurkat cell (KMT2D V5486M)
treatment
Chidamide (5nm)
antibody
H3K4me3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
DNA extraction protocol Chromatin Immunoprecipitation was performed according to Wamstad et al. (2012). The yield of ChIPed DNA was determined via Quant IT fluorescence assay (Life Technologies) and enrichment efficiencies of ChIP reactions were evaluated by qPCR. Illumina sequencing libraries were generated with NEBNext® Ultra™ DNA Library Prep Kit (New England Biolabs) by following the manufacturer’s manual. The library quality was determined by using Agilent 2100 Bioanalyzer (Agilent), and then, subjected to high-throughput 150 base paired-end sequencing on Illumina Hiseq sequencer according to the manufacturer’s recommended protocol.

Sequencing Platform

instrument_model
Illumina HiSeq 4000

hg38

Number of total reads
14982732
Reads aligned (%)
90.6
Duplicates removed (%)
3.8
Number of peaks
6701 (qval < 1E-05)

hg19

Number of total reads
14982732
Reads aligned (%)
90.1
Duplicates removed (%)
3.9
Number of peaks
6574 (qval < 1E-05)

Base call quality data from DBCLS SRA