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RNA sequencing of mouse dendritic cells in Aire-reporter strain

ABSTRACT: RNA sequencing of mouse dendritic cells in Aire-reporter strain

PROVIDER: PRJNA868595 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR21011800_1.fastq.gz	Fastqsanger.gz
	SRR21011800_2.fastq.gz	Fastqsanger.gz
	SRR21011801_1.fastq.gz	Fastqsanger.gz
	SRR21011801_2.fastq.gz	Fastqsanger.gz
	SRR21011802_1.fastq.gz	Fastqsanger.gz

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RNA sequencing of mouse dendritic cells in Aire-reporter strain

Project description:Bulk RNA-seq analysis of mouse dendritic cells (DCs) in Aire-reporter strain (AGF-KI: human AIRE and GFP-Flag tag knock-in). Aire+ DCs and Aire- DCs were isolated from lymph nodes and bone marrow, using Aire-sufficient (+/KI) and Aire-deficient background (-/KI).

2023-01-05 | GSE211006 | GEO

Single cell RNA sequencing of putative AIRE+ dendritic cells from human paediatric tonsillitis

Project description:Characterisation and identification of putative human extra-thymic AIRE-expressing cells from paediatric tonsillitis samples using single -cell transcriptome profiling.

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RNA-sequencing of Aire-ILC3 cells from wild-type and Aire-deficient mice

Project description:Autoimmune regulator (Aire) plays an indispensable role in the induction of central immune tolerance. We identify a novel subset of Rorγt-dependent innate lymphoid cell-type in secondary lymphoid organs, which presents endogenously generated antigens and contributes to peripheral T cell tolerance. In this experiment, transcriptomes of these Aire-ILC3 cells are characterized in wild-type Balb/C and Aire-/- Balb/C mice [Ramsey, C. et al. (2002) Hum Mol Genet 11:397-409] using RNA-seq method. To obtain the cells, peripheral lymph nodes were minced, enzymatically digested, and Aire-ILC3 cells were FACS-sorted as Lin-, MHCII+, CD80+, IL7Ra+ cells.

2019-03-14 | E-MTAB-7088 | biostudies-arrayexpress

Aire regulates transfer of antigen from mTEC to dendritic cells for induction of thymic tolerance

Project description:To investigate the role of Aire in thymic selection, we examined the cellular requirements for generation of ovalbumin (OVA)-specific CD4 and CD8 T cells in mice expressing OVA under the control of the rat insulin promoter (RIP). Aire-deficiency reduced the number of mature single positive (SP) OVA-specific CD4+ or CD8+ T cells in the thymus, independent of OVA expression. Importantly, it also contributed in two way to OVA-dependent negative selection depending on the T cell type. Aire-dependent negative selection of OVA-specific CD8 T cells correlated with Aire-regulated expression of OVA. By contrast, for OVA-specific CD4 T cells, Aire affected tolerance induction by a mechanism that operated independent of the level of OVA expression, controlling access of antigen presenting cells to mTEC-expressed OVA. This study supports the view that one mechanism by which Aire controls thymic negative selection is by regulating the indirect presentation of mTEC-derived antigens by thymic dendritic cells. It also indicates that mTEC can mediate tolerance by direct presentation of Aireregulated antigens to both CD4 and CD8 T cells. Total RNA was extracted from medullary thymic epithelial cells isolated from wildtype and Aire-deficient C57BL/6 mice for comparison of gene expression profiles.

2011-04-06 | E-GEOD-28393 | biostudies-arrayexpress

Mechanistic dissection of dominant AIRE mutations in mouse models reveals evidence for AIRE auto-regulation [RNA-seq]

Project description:Using mouse models of several recessive and putative dominant-negative patient mutations we were able to dissect the mechanisms that underlie the recessive and dominant-negative capacities of the corresponding AIRE mutants, including a newly identified dominant-negative variant C446G We also identify an auto-regulatory mechanism by which AIRE negatively modulates its own expression.

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Aire regulates transfer of antigen from mTEC to dendritic cells for induction of thymic tolerance

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Project description:Single cell RNA sequencing of putative AIRE+ dendritic cells from human paediatric tonsillitis

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Mechanistic dissection of dominant AIRE mutations in mouse models reveals AIRE auto-regulation [ChIP-Seq]

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Project title: Endogenous AIRE-immunoprecipitation from primary human neutrophils

Project description:Autoimmune regulator (AIRE) is a transcriptional regulator. We here assess the role for AIRE in primary human neutrophils. We found that the functional role for AIRE in neutrophils is to regulate the extrinsic apoptotic pathway involving the Fas/TNFR death receptors and Cathepsin G and the expression of unique immune mediators.

2024-01-25 | PXD047989 | Pride

AIRE drives early life thymic interferons and changes thymic self-antigen expression [bulk RNA-seq]

Project description:Type I interferons (IFN-I) are transiently induced during infections, but were reported to be produced in the thymus at steady state. We found that developing thymocytes displayed an IFN-I signature that was mainly dependent on IFN-β. Using Ifnb1 reporter mouse strains, we observed IFN-β expression in a small population of medullary thymic epithelial cells (mTEC), which was AIRE-dependent and peaked at 2-3 weeks of age. To study the cellular response to thymic IFN, we used a Mx1gfp reporter mouse strain and found that the IFN response in T cells and myeloid cells was abrogated by IFNaR deficiency, whereas the response in B cells and dendritic cells was dependent on both IFNaR and IFNlR. Furthermore, single-cell RNAseq analysis revealed dramatic transcriptional changes in all thymic APCs in IFNaR/IFNlR deficient mice, and a loss of CCR7+ cDC1 cells. Together, these results show that steady state IFN-I and IFN-III signaling drives a gene-expression program in thymic APCs that shapes the thymic microenvironment.

2024-09-09 | GSE192715 | GEO

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