Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

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

Attributes by original data submitter

Sample

source_name
REH_H3K4me3
cell line
REH
cell type
Pre-B lymphoblast cells
tissue
Peripheral blood
chip antibody
H3K4me3 (04-745, Merck Millipore)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed in 1% formaldehyde (648336, Polysciences) at room temperature for 10 min and then quenched in 100 mM glycine for 1 min. Cells were washed twice in PBS and lysed 15 min in 50 mM Tris-HCl ph8.1/10 mM EDTA/0.5% Empigen BB/1% SDS. Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. ChIP-seq libraries were generated using TruSeq® ChIP Library Preparation Kit (Illumina) according to the manufacturer's protocol.

Sequencing Platform

instrument_model
Illumina HiSeq 1500

hg38

Number of total reads
26556113
Reads aligned (%)
96.5
Duplicates removed (%)
11.6
Number of peaks
22704 (qval < 1E-05)

hg19

Number of total reads
26556113
Reads aligned (%)
96.0
Duplicates removed (%)
12.1
Number of peaks
22766 (qval < 1E-05)

Base call quality data from DBCLS SRA