Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
STAT3

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.

Attributes by original data submitter

Sample

source_name
primary human TH1 cells
chip antibody
Stat3
cell type
Human TH1 cells
stimulated with
IL6_Mut3

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

hg19

Number of total reads
53345100
Reads aligned (%)
45.4
Duplicates removed (%)
71.3
Number of peaks
1172 (qval < 1E-05)

hg38

Number of total reads
53345100
Reads aligned (%)
47.8
Duplicates removed (%)
70.2
Number of peaks
1860 (qval < 1E-05)

Base call quality data from DBCLS SRA