Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me2

Cell type

Cell type Class
Blood
Cell type
SET-2
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Acute Myelogenous

Attributes by original data submitter

Sample

source_name
WT SET-2 cells, DMSO, 48 hours
cell line
SET-2
genotype/variation
wild type
treatment
DMSO
cell type
acute myeloid leukemia
chip antibody
AB_2614985 (H3K4me2-human antibody, Active Motif 39141, LOT# 01008001)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed in 1% formaldehyde, washed, snap frozen, and stored at -80ºC. Sonication of crosslinked cells was calibrated such that DNA was sheared to between 300bp and 2000bp. ChIP DNA was used to generate sequencing libraries by end repair (End-It DNA repair kit, Epicentre), 3' A base overhang addition via Klenow fragment (NEB), and ligation of barcoded sequencing adapters.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
29816547
Reads aligned (%)
0.0
Duplicates removed (%)
3.2
Number of peaks
38555 (qval < 1E-05)

hg19

Number of total reads
29816547
Reads aligned (%)
0.0
Duplicates removed (%)
3.3
Number of peaks
38238 (qval < 1E-05)

Base call quality data from DBCLS SRA