Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me1

Cell type

Cell type Class
Blood
Cell type
Neutrophils
MeSH Description
Immature neutrophils.

Attributes by original data submitter

Sample

source_name
active disease, treated
cell type
neutrophils
disease state
Juvenile Idiopathic Arthritis
chip antibody
Anti-Histone H3 (mono methyl K4) antibody - ChIP Grade (ab8895)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Peripheral blood mononuclear cells (PBMC) were separated from neutrophils and red blood cells by density-gradient centrifugation. Red cells were removed from neutrophils by hypotonic lysis. Neutrophils were crosslinked using 1% formaldehyde in 10 ml PBS for 10 min at room temperature. Crosslinking was quenched by adding 1× glycine. ChIP was performed following the protocol (Cell Signaling Technologies, Inc.). DNA-sequencing was conducted using the Illumina HiSeq 2500.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
23344018
Reads aligned (%)
98.2
Duplicates removed (%)
42.6
Number of peaks
398 (qval < 1E-05)

hg19

Number of total reads
23344018
Reads aligned (%)
97.7
Duplicates removed (%)
43.3
Number of peaks
372 (qval < 1E-05)

Base call quality data from DBCLS SRA