Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27ac

Cell type

Cell type Class
Blood
Cell type
Th1 Cells
MeSH Description
A subset of helper-inducer T-lymphocytes which synthesize and secrete INTERLEUKIN-2; INTERFERON-GAMMA; and INTERLEUKIN-12. Due to their ability to kill antigen-presenting cells and their lymphokine-mediated effector activity, Th1 cells are associated with vigorous delayed-type hypersensitivity reactions.

Attributes by original data submitter

Sample

source_name
Effector memory TH1 cells
disease state
T1D
individual
T23
tissue
Peripheral Blood
cell type
Effector memory TH1 cells
chip antibody
H3K27ac (Abcam, ab4729)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Libraries were prepared using ThruPLEX® DNA-seq Kit (Rubicon Genomics) according to the protocol from the vendor. Qubit, bioanalyzer and KAPA qPCR were done before pooling for sequencing on HiSeq 2500 platform.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
25696709
Reads aligned (%)
96.5
Duplicates removed (%)
23.1
Number of peaks
4247 (qval < 1E-05)

hg19

Number of total reads
25696709
Reads aligned (%)
95.7
Duplicates removed (%)
24.5
Number of peaks
4279 (qval < 1E-05)

Base call quality data from DBCLS SRA