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Series GSE145820 Query DataSets for GSE145820
Status Public on Jun 30, 2020
Title Structural cells are key regulators of organ-specific immune response
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary The mammalian immune system implements a remarkably effective set of mechanisms for fighting pathogens. Its main actors are hematopoietic immune cells, including myeloid cells with their focus on innate immunity and lymphoid cells as enablers of adaptive immunity. Nevertheless, immune functions are not unique to hematopoietic cells, and basic mechanisms of pathogen defense are present in many other cell types. To advance our understanding of immunology outside of the hematopoietic system, we systematically investigated immune gene regulation in the three major types of structural cells: Epithelium, endothelium, and fibroblasts. We characterized these cell types across 12 organs in mice, using cellular phenotyping, transcriptome sequencing, chromatin accessibility profiling, and epigenome mapping. This comprehensive dataset uncovered a striking complexity of immune gene activity and regulation in structural cells. The observed patterns were highly organ-specific and appear to modulate interactions between structural cells and hematopoietic immune cells. Moreover, we identified an epigenetically encoded immune potential in structural cells under tissue homeostasis, which was triggered in response to systemic viral infection. This study highlights an underappreciated complexity of organ-specific immune gene regulation beyond hematopoietic cells, and it provides a high-resolution, multi-omics atlas of the epigenomic and transcription-regulatory circuitry of structural cells in the mouse.
Overall design 230 RNA-seq (SMART-seq2) samples of 3 types of structural cells (endothelium, epithelium, fibroblasts) sort-purified from 4 organs and treated with 6 stimuli in mice.
Contributor(s) Krausgruber T, Fortelny N, Gernedl V, Schuster LC, Nemc A, Schmidl C, Rendeiro AF, Lercher A, Bergthaler A, Bock C
Citation(s) 32612232
Submission date Feb 24, 2020
Last update date Aug 24, 2020
Contact name Christoph Bock
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)
GPL21103 Illumina HiSeq 4000 (Mus musculus)
Samples (230)
GSM4396053 Liver_Fibroblasts_IL6_RNA_2
GSM4396054 Liver_Fibroblasts_TGFb_RNA_3
GSM4396055 Spleen_Fibroblasts_IFNa_RNA_1
This SubSeries is part of SuperSeries:
GSE134663 Structural cells are key regulators of organ-specific immune response
BioProject PRJNA608452
SRA SRP250517

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Supplementary file Size Download File type/resource
GSE145820_RNA.treatments.log2cpm.csv.gz 39.5 Mb (ftp)(http) CSV 4.0 Mb (ftp)(http) CSV
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