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Series GSE28292 Query DataSets for GSE28292
Status Public on Mar 31, 2011
Title Genome-wide analysis reveals unique regulation of transcription of Th2-specific genes by GATA3
Organism Mus musculus
Experiment type Expression profiling by array
Genome binding/occupancy profiling by high throughput sequencing
Summary Differentiation of naive CD4 T cells into type 2 helper (Th2) cells is accompanied by chromatin remodeling and increased expression of a set of Th2-specific genes including those encoding Th2 cytokines. IL-4-mediated STAT6 activation induces high levels of transcription of GATA3, a master regulator of Th2 cell differentiation, and enforced expression of GATA3 induces Th2 cytokine expression. However, it remains unclear whether the expression of other Th2-specific genes is induced directly by GATA3. A genome-wide unbiased ChIP-seq analysis revealed that GATA3 bound to 1,279 genes selectively in Th2 cells, and 101 genes in both Th1 and Th2 cells. Simultaneously, we identified 26 highly Th2-specific STAT6-dependent inducible genes by a DNA microarray analysis-based three-step selection processes, and among them 17 genes showed GATA3 binding. We assessed dependency on GATA3 for the transcription of these 26 Th2-specific genes, and 10 genes showed increased transcription in a GATA3-dependent manner while 16 genes showed no significant responses. The transcription of the 16 GATA3-nonresponding genes was clearly increased by the introduction of an active form of STAT6, STAT6VT. Therefore, although GATA3 has been recognized as a master regulator of Th2 cell differentiation, many Th2-specific genes are not regulated by GATA3 itself but in collaboration with STAT6.
 
Overall design Th1 and Th2 subsets are profiled for mRNA expression
Examination of GATA3-binding and 3 different histone modifications in Th1 and Th2 cells.
 
Contributor(s) Horiuchi S, Onodera A, Hosokawa H, Watanabe Y, Tanaka T, Sugano S, Suzuki Y, Nakayama T
Citation(s) 21536806
Submission date Mar 31, 2011
Last update date Feb 11, 2019
Contact name Atsushi Onodera
Organization name Chiba University
Department Immunology
Street address Chuo-ku Inohana 1-8-1
City Chiba
ZIP/Postal code 260-8670
Country Japan
 
Platforms (2)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
Samples (16)
GSM700062 Th1
GSM700063 Th2
GSM773479 control_Ab_ChIPSeq_Th1
Relations
SRA SRP007894
BioProject PRJNA139353

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Supplementary file Size Download File type/resource
GSE28292_RAW.tar 590.5 Mb (http)(custom) TAR (of BED, CEL)
Raw data are available in SRA
Processed data included within Sample table
Processed data provided as supplementary file

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