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Series GSE98263 Query DataSets for GSE98263
Status Public on Aug 28, 2017
Title The TNF receptor super family - NF-κB axis is critical to maintain effector regulatory T cells in lymphoid and non-lymphoid tissues [ChIP-seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary After exiting the thymus, Foxp3+ regulatory T (Treg) cells undergo further differentiation in the periphery resulting in the generation of effector (e)Treg cells, a process dependent on TCR signaling and the transcription factor IRF4. Here we show tumor necrosis factor receptor super family (TNFRSF) signaling plays a crucial role in the development and maintenance of eTreg cells. TNFRSF signaling activated the NF-κB transcription factor RelA and induced expansion and survival of eTreg cells in lymphoid and non-lymphoid tissues, including RORγt+ resident Treg cells in the small intestine. RelA regulated basic cellular processes in Treg cells, including cell survival and proliferation in response to TNFRSF signaling, but was not required for IRF4 expression or DNA binding, indicating that both pathways operate independently. Importantly, a similar pathway appeared to be active in humans, as patients with a point mutation in NF-κB1, a binding partner of RelA, had severely compromised Treg cells. Therefore, although TCR signaling is essential for eTreg cell differentiation, the TNFRSF-NF-κB axis was additionally required in a non-redundant manner to maintain the pool of eTreg cells.
Overall design Identification of IRF4 and RelA/p65 target genes in murine regulatory T cells.
Contributor(s) Vasanthakumar A, Liao Y, Shi W, Kallies A
Citation(s) 28889989
Submission date Apr 26, 2017
Last update date May 15, 2019
Contact name Wei Shi
Organization name Olivia Newton John Cancer Research Institute
Department Bioinformatics and Cancer Genomics
Street address Level 5, ONJ Cancer Centre, 145 Studley Rd
City Heidelberg
State/province VIC
ZIP/Postal code 3084
Country Australia
Platforms (2)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (7)
GSM2590030 Irf4ChIP on WT sample, rep 1
GSM2590031 Irf4ChIP on WT sample, rep 2
GSM2590032 Irf4ChIP on WT sample, rep 3
This SubSeries is part of SuperSeries:
GSE98264 The TNF receptor super family - NF-κB axis is critical to maintain effector regulatory T cells in lymphoid and non-lymphoid tissues
BioProject PRJNA384489
SRA SRP105382

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Supplementary file Size Download File type/resource
GSE98263_Irf4ChIP-WT-FDR1e-6_summits.bed.gz 84.2 Kb (ftp)(http) BED
GSE98263_Irf4ChIP-p65KO-FDR1e-6_summits.bed.gz 64.9 Kb (ftp)(http) BED
GSE98263_p65ChIP-WT-FDR0.05_summits.bed.gz 11.6 Kb (ftp)(http) BED
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Raw data are available in SRA
Processed data are available on Series record

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