Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
NR4A1

Cell type

Cell type Class
Blood
Cell type
Kasumi-1
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Acute Myelogenous

Attributes by original data submitter

Sample

source_name
acute myeloid leukemia
cell line
acute myeloid leukemia cell line Kasumi-1
antibody
anti-NR4A1 (Santa Cruz, sc-990)
treatment
NR4A1 mRNA electroporation
genotype/variation
NR4A1

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were lysed by Dounce homogenization and chromatin was sheared to an average length of 300-500bp. 30ug aliquots of lysates were pre-cleared with Protein A agarose beads and incubated with 2ug NR4A antibody (sc-990, Santa Cruz Biotechnology) overnight at 4ºC. ChIP and input DNA were amplified using the Illumina ChIP-Seq DNA Sample Prep Kit.

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

hg19

Number of total reads
37958174
Reads aligned (%)
83.3
Duplicates removed (%)
14.7
Number of peaks
26549 (qval < 1E-05)

hg38

Number of total reads
37958174
Reads aligned (%)
85.2
Duplicates removed (%)
13.4
Number of peaks
26660 (qval < 1E-05)

Base call quality data from DBCLS SRA