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Series GSE227168 Query DataSets for GSE227168
Status Public on Feb 24, 2024
Title JAK-STAT signaling maintains homeostasis in T cells and macrophages (spatial transcriptomics)
Organism Mus musculus
Experiment type Other
Summary Immune cells need to sustain a state of constant alertness over a lifetime. Yet, little is known about the regulatory processes that control the fluent and fragile balance that is called homeostasis. Here we demonstrate that JAK-STAT signaling, beyond its role in immune responses, is a major regulator of immune cell homeostasis. We investigated JAK-STAT-mediated transcription and chromatin accessibility across 12 mouse models, including knockouts of all STAT transcription factors and of the TYK2 kinase. Baseline JAK-STAT signaling was detected in CD8+ T cells and macrophages of unperturbed mice – but abrogated in the knockouts and in unstimulated immune cells deprived of their normal tissue context. We observed diverse transcription-regulatory programs, including gene regulation by STAT2 and IRF9 independent of STAT1. In summary, our large-scale dataset and integrative analysis of JAK-STAT mutant and wildtype mice uncovered a crucial role of JAK-STAT signaling in unstimulated immune cells, where it contributes to a poised epigenetic and transcription-regulatory state and helps prepare these cells for rapid response to immune stimuli.
 
Overall design 4 spatial transcriptomics samples of spleen-tissue slices from wildtype and Stat1 mutant animals
 
Contributor(s) Fortelny N, Farlik M, Fife V, Gorki A, Lassnig C, Maurer B, Meissl K, Dolezal M, Boccuni L, Geetha AR, Karjalainen A, Shoebridge S, Mann U, Jain R, Tikoo S, Zila N, Esser-Skala W, Krausgruber T, Sitnik K, Farhat A, Penz T, Hladik A, Suske T, Akagha MJ, Zahalka S, Senekowitsch M, Barreca D, Halbritter F, Macho-Maschler S, Weninger W, Neubauer HA, Moriggl R, Knapp S, Sexl V, Strobl B, Decker T, Müller M, Bock C
Citation(s) 38658806
Submission date Mar 12, 2023
Last update date May 24, 2024
Contact name Christoph Bock
E-mail(s) cbock@cemm.oeaw.ac.at
Organization name CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
Street address Lazarettgasse 14
City Vienna
ZIP/Postal code 1090
Country Austria
 
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (4)
GSM7092703 Spleen-derived tissue slice from Stat1-ko mice 1
GSM7092704 Spleen-derived tissue slice from Stat1-ko mice 2
GSM7092705 Spleen-derived tissue slice from wildtype mice 1
This SubSeries is part of SuperSeries:
GSE204736 JAK-STAT signaling maintains homeostasis in T cells and macrophages
Relations
BioProject PRJNA943499

Download family Format
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE227168_aggr_tissue_positions.csv.gz 223.9 Kb (ftp)(http) CSV
GSE227168_filtered_feature_bc_matrix.h5 27.1 Mb (ftp)(http) H5
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Raw data are available in SRA
Processed data are available on Series record

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