Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptomic analysis of Clec12A-deficient BMDCs stimulated with RIG-I agonist

ABSTRACT: Innate immune receptors rely on the detection of diverse immunological cues and intensive crosstalk to generate context-dependent responses. The inhibitory C-type lectin receptor Clec12A has been shown to sense dead cells and danger-associated molecule uric acid crystal, and to subsequently limit inflammation. However, whether Clec12A plays additional roles in innate immunity has not yet been determined. Here we demonstrate that the activation of Clec12A enhances the induction of type I interferon (IFN-I) response. Through integrating data from RNA-seq, gene set enrichment analysis, and biochemical studies, we show that Clec12A is required for optimal transcription of interferon-stimulated genes in response to pattern recognition receptors (e.g. RIG-I) activation.

ORGANISM(S): Mus musculus

PROVIDER: GSE134082 | GEO | 2019/08/14

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Transcriptomic analysis of Clec12A-deficient BMDCs stimulated with RIG-I agonist

Project description:Transcriptomic analysis of Clec12A-deficient BMDCs stimulated with RIG-I agonist

| PRJNA553706 | ENA

RNA-Seq of human aortic endothelial cells with lysophosphatidylinositol against untreated controls

Project description:Vascular Innate immune cells, such as macrophages, elicit long-term T cell-, and B cell- immune responses, by expressing danger-associated molecular pattern (DAMP) receptors, T cell co-stimulation receptors and presenting antigens to the adaptive system through major histocompatibility complex (MHC)-II. Here, we investigated whether human aortic endothelial cells (HAECs) could also be “transdifferentiated” into innate immune cells after treatment of hyperlipidemia-upregulated DAMP molecules, lysophosphatidylinositol (LPI). HAECs were treated with vehicle control or lysophosphatidylinositol (16:0) (10µM) for 18 hours.

2018-05-16 | E-MTAB-6605 | biostudies-arrayexpress

LGP2 binds PACT to regulate RIG-I- and MDA5-mediated antiviral response

Project description:The RIG-I-like receptors (RLRs: RIG-I, MDA5 and LGP2) trigger inflammatory and antiviral responses by sensing non-self RNA molecules produced during viral replication. LGP2 regulation of RIG-I and MDA5-dependant type-I interferon signaling is a matter of controversy. Here we show that LGP2 interacts with different components of the RNA silencing machinery. Particularly, we identified a direct protein-protein interaction between LGP2 and interferon-inducible double-stranded RNA-dependent protein kinase activator A (PACT). The LGP2-PACT interaction is mediated by the regulatory C-terminal domain of LGP2 and is necessary for inhibiting the RIG-I- and amplifying the MDA5-responses. We describe a point mutation within LGP2 that disrupts LGP2-PACT interaction and leads to the loss of LGP2 regulatory activity over RIG-I and MDA5. These results provide a model in which PACT-LGP2 interaction regulates RIG-I and MDA5 inflammatory response and allows cellular RNA silencing machinery to coordinate the innate immune response.

2019-10-02 | PXD013191 | Pride

Intrinsic innate immunostimulation by small circRNA vaccines [BMDCs]

Project description:Various RNAs have been shown to elicit innate immunity by activating endosomal PRRs such as Toll-like receptors 3/7/8 (TLR3/7/8), and cytosolic PRRs (e.g., retinoic acid-inducible gene I (RIG-I), melanoma differentiation-associated protein 5 (MDA5)). Such innate immunity provides cytokines and co-stimulation signals that are essential for adaptive immunomodulation.

2023-12-31 | GSE221084 | GEO

Transcriptomes of human monocytes after ex vivo exposure to uric acid

Project description:Innate immune memory, also refered to as trained immunity (TRIM) is the phenomenon whereby innate immune cells such as monocytes or macrophages undergo functional reprogramming after exposure to microbial components. In this study we exposed monocytes from healthy donors to uric acid ex vivo, and analyzed the effect of this exposure on gene expression changes. After 'uric acid' or 'media only' treatments, monocytes were exposed to LPS for 4 hours to measure they response to this pyrogen.

2017-12-08 | GSE107821 | GEO

Integrated genomics of Crohn’s disease risk variant identifies a role for CLEC12A in antibacterial autophagy

Project description:Using integrated genomics we identify a role for CLEC12A in antibacterial autophagy. Clec12a-/- mice are more susceptible to bacterial infection and CLEC12A deficient cells exhibit impaired antibacterial autophagy. We used transcriptional profilinf to understand the role of CLEC12A in the response to Salmonella and Listeria. Bone marrow-derived macrophages from WT or Clec12a-/- mice were infected with Salmonella enterica serovar Typhimurium or Listeria monocytogenes. Cells were harvested at 0,3,6, and 24hours post-infection for RNA analysis. Please note that single-end sequencing was performed but two files: R1 files that contained the sample barcodes (19 or 17bp reads) and R2 files that contained the single-end-sequenced 46bp cDNA reads were generated. Since the barcode info is mostly redundant, only R2 reads were submitted (described in 'raw_file_readme.txt').

2015-06-30 | E-GEOD-69132 | biostudies-arrayexpress

Integrated genomics of Crohn’s disease risk variant identifies a role for CLEC12A in antibacterial autophagy

2015-06-30 | GSE69132 | GEO

CD161 defines a transcriptional and functional phenotype shared across distinct human T cell lineages (CD4)

Project description:T lymphocytes are conventionally divided into subsets based upon expression of co-receptors, cytokines and surface molecules. By mRNA microarray analysis, T lymphocytes that express the C-type lectin CD161 were identified to share a transcriptional profile, which led to the identification of an innate function across these previously defined subsets, including CD8, CD4 and TCRgd T cells. Gene expression of magnetically enriched, resting CD161+ and CD161- CD4+ T cells from peripheral blood was measured in 3 healthy donors.

2014-10-07 | E-GEOD-62095 | biostudies-arrayexpress

CD161 defines a transcriptional and functional phenotype shared across distinct human T cell lineages (TCRgd)

Project description:T lymphocytes are conventionally divided into subsets based upon expression of co-receptors, cytokines and surface molecules. By mRNA microarray analysis, T lymphocytes that express the C-type lectin CD161 were identified to share a transcriptional profile, which led to the identification of an innate function across these previously defined subsets, including CD8, CD4 and TCRgd T cells. Gene expression of sort purified, resting CD161+ and CD161- TCRgd T cells from peripheral blood was measured in 4 healthy donors.

2014-10-07 | E-GEOD-62097 | biostudies-arrayexpress

Gene expression changes upon activation of RIG-I by a minimal potent RIG-I ligand

Project description:We have developed highly potent synthetic activators of the vertebrate immune system that specifically target the RIG-I receptor. When introduced into mice, a family of short, triphosphorylated Stem Loop RNAs (SLRs) induces a potent interferon response and the activation of specific genes essential for antiviral defense. Using RNAseq, we provide the first in-vivo genome-wide view of the expression networks that are initiated upon RIG-I activation. We observe that SLRs specifically induce type I interferons, subsets of interferon-stimulated genes (ISGs), and cellular remodeling factors. By contrast, poly(I:C), which binds and activates multiple RNA sensors, induces type III interferons and several unique ISGs. The short length (10-14 base pairs) and robust function of SLRs in mice demonstrate that RIG-I forms active signaling complexes without oligomerizing on RNA. These findings demonstrate that SLRs are potent therapeutic and investigative tools for targeted modulation of the innate immune system.

2018-02-03 | GSE106229 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data