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Series GSE38808 Query DataSets for GSE38808
Status Public on Oct 04, 2012
Title The Transcription Factor T-bet Is Induced by Multiple Pathways and Prevents an Endogenous Th2 Cell Program during Th1 Cell Responses
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary T-bet is a critical transcription factor for T helper 1 (Th1) cell differentiation. To study the regulation and functions of T-bet, we developed a T-bet-ZsGreen reporter mouse strain, in which GFP faithfully reflects the expression of T-bet. By using this tool, we report that signals elicited by IL-12 and IFNg are redundant in inducing T-bet in mice infected with Toxoplasma gondii and that T-bet does not contribute to its own expression when induced by IL-12 and IFNg. While both T-bet and Stat4 are critical for IFNg production, IFNg signaling is dispensable. Strikingly, loss of T-bet results in activation of an endogenous Th2 program in cells expressing T-bet-ZsGreen. Genome-wide analyses suggest T-bet directly induces Th1-related genes but indirectly suppresses Th2-related genes. Our study revealed redundancy and synergy among several Th1-inducing pathways in regulating the expression of T-bet and IFNg, and a critical role of T-bet in suppressing an endogenous Th2 program.
Overall design RNA-Seq experiments were performed using total RNAs isolated from both wild type and Tbx21-/- Th1 cells in duplicates. Tbet ChIP-seq was performed using wild type Th1 cells. H3K4me1 and H3K27me3 ChIP-seq was performed using both wild type and Tbx21-/- Th1 cells.
Contributor(s) Zhu J, Jankovic D, Oler AJ, Wei G, Sharma S, Hu G, Guo L, Yagi R, Yamane H, Punkosdy G, Feigenbaum L, Zhao K, Paul WE
Citation(s) 23041064
Submission date Jun 19, 2012
Last update date May 15, 2019
Contact name Andrew J Oler
Organization name NIAID/NIH
Department Bioinformatics and Computational Biosciences Branch (BCBB)
Lab Computational Biology Section
Street address 31 Center Drive, Room 3B62E
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
Platforms (2)
GPL9250 Illumina Genome Analyzer II (Mus musculus)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (9)
GSM949917 WT RNA-seq rep1
GSM949918 WT RNA-seq rep2
GSM949919 Tbx21-KO RNA-seq rep1
BioProject PRJNA168983
SRA SRP013826

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Supplementary file Size Download File type/resource
GSE38808_Table-S1-Zhu-TBGR.xls.gz 523.4 Kb (ftp)(http) XLS
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