Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Blood

Cell type

Th2 Cells

MeSH Description

A subset of helper-inducer T-lymphocytes which synthesize and secrete the INTERLEUKINS IL-4; IL-5; IL-6; and IL-10. These cytokines influence B-cell development and antibody production as well as augmenting humoral responses.

Sample

source_name

primary human TH1 cells

chip antibody

Input

cell type

Human TH1 cells

stimulated with

NA

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

For STAT3 ChIP-seq, formaldehyde-fixed human Th1 cells were sonicated using sonicator (Vibra Cell, SONICS) and resulting chromatin fragments equivalent to 10 million cells were isolated by centrifugation and STAT3 bound chromatin complexes were isolated with the anti-STAT3 antibody. For RNA-seq experiments, Total RNA isolated from human Th1 cells that were either not stimulated or stimulated with different IL-6 variants for 6 hours. ChIP-Seq libraries were prepared using the KAPA LTP library preparation kit (Roche Sequencing) and the NextFlex DNA barcode adoptors (Bioo Scientific, PerkinElmer) for multiplexing and libraries were then sequenced on Illumina Hi-Seq 4000 platform (GeneWiz). 

Sequencing Platform

instrument_model

Illumina HiSeq 4000

hg38

Number of total reads

34412728

Reads aligned (%)

92.9

Duplicates removed (%)

34.3

Number of peaks

563 (qval < 1E-05)

hg19

Number of total reads

34412728

Reads aligned (%)

92.0

Duplicates removed (%)

34.9

Number of peaks

396 (qval < 1E-05)