Antigen

Antigen Class

Input control

Antigen

Input control

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.

Sample

source_name

Effector memory TH1 cells

disease state

T1D

individual

T25

tissue

Peripheral Blood

cell type

Effector memory TH1 cells

chip antibody

None

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

24272344

Reads aligned (%)

98.8

Duplicates removed (%)

8.2

Number of peaks

1033 (qval < 1E-05)

hg19

Number of total reads

24272344

Reads aligned (%)

97.9

Duplicates removed (%)

9.8

Number of peaks

1043 (qval < 1E-05)