GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE31320 Query DataSets for GSE31320
Status Public on Nov 16, 2012
Title Genome-wide identification of functional elements regulated by T-bet and GATA3 in human T-cells
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary T-bet and GATA3 induce differentiation of CD4+ T-cells into Th1 or Th2 effectors. These exhibit a range of different properties but understanding of T-bet and GATA3 function is mostly limited to the murine Ifng and Il4/Il5/Il13 loci. We hypothesised that extending such analyses across the human genome would allow further insight into T-bet and GATA3 function. We have discovered that T-bet and GATA3 bind to multiple distal sites at a set of key immune regulatory genes. These sites display markers of functional elements, act as enhancers in reporter assays and are associated with lineage-specific expression regulated by T-bet and GATA3. Our approach also reveals that GATA3 is distributed at T-bet binding sites in Th1 cells and that T-bet directly activates its own expression. We propose that these aspects of T-bet and GATA3 function are critical for Th1/ Th2 differentiation and provide a model for the relationship between other lineage-specific regulators.
Overall design ChIP was performed using antibody against T-bet in Th1 cells and against GATA3 in Th1 cells as well as Th2 cells. A sample of whole cell extract (WCE) from Th1 cells and Th2 cells was sequenced. Th1 WCE was used as the background to determine enrichment.
Contributor(s) Kanhere A, Hertweck A, Lord GM, Jenner R
Citation(s) 23232398
Submission date Aug 10, 2011
Last update date May 15, 2019
Contact name Aditi Kanhere
Organization name University of Liverpool
Street address Institute of Systems, Molecular and Integrative Biology
City Liverpool
ZIP/Postal code L69 3GE
Country United Kingdom
Platforms (1)
GPL9115 Illumina Genome Analyzer II (Homo sapiens)
Samples (5)
GSM776555 Th1_WCE
GSM776556 Th2_WCE
GSM776557 Th1_Tbet
SRA SRP007861
BioProject PRJNA146093

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE31320_RAW.tar 1.5 Gb (http)(custom) TAR (of BED, BW, TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap