GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE134658 Query DataSets for GSE134658
Status Public on Jun 30, 2020
Title Structural cells are key regulators of organ-specific immune response
Organism Mus musculus
Experiment type Genome binding/occupancy 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 71 ChIPseq (ChIPmentation) samples with antibodies for H3K4me2 in 3 types of structural cells (endothelium, epithelium, fibroblasts) sort-purified from 12 organs 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 Jul 22, 2019
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 (71)
GSM4395761 Brain_Epithelium_SteadyState_CHIP_1
GSM4395762 Brain_Epithelium_SteadyState_CHIP_2
GSM4395763 Brain_Endothelium_SteadyState_CHIP_2
This SubSeries is part of SuperSeries:
GSE134663 Structural cells are key regulators of organ-specific immune response
BioProject PRJNA556005
SRA SRP215933

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE134658_ChIPmentation.log2cpm.csv.gz 94.1 Mb (ftp)(http) CSV 8.4 Mb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap