Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Th single cell RNA-Seq

ABSTRACT: Th2 cells regulate helminth infections, allergic disorders, tumor immunity and pregnancy by secreting various cytokines. It is likely that there are undiscovered Th2-signaling molecules. While steroids are known to be immunoregulators, de novo steroid production from immune cells has not been previously characterised. We demonstrate production of the steroid pregnenolone by Th2 cells in vitro, and in vivo in a helminth infection model. To identify gene-expression identify of these steroidogenic-Th2 cells, we performed single-cell RNA-sequencing.

INSTRUMENT(S): Illumina HiSeq 2000

ORGANISM(S): Mus musculus

SUBMITTER: Sarah Teichmann

PROVIDER: E-MTAB-2512 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Single-cell RNA sequencing reveals T helper cells synthesizing steroids de novo to contribute to immune homeostasis.

Mahata Bidesh B Zhang Xiuwei X Kolodziejczyk Aleksandra A AA Proserpio Valentina V Haim-Vilmovsky Liora L Taylor Angela E AE Hebenstreit Daniel D Dingler Felix A FA Moignard Victoria V Göttgens Berthold B Arlt Wiebke W McKenzie Andrew N J AN Teichmann Sarah A SA

Cell reports 20140510 4

T helper 2 (Th2) cells regulate helminth infections, allergic disorders, tumor immunity, and pregnancy by secreting various cytokines. It is likely that there are undiscovered Th2 signaling molecules. Although steroids are known to be immunoregulators, de novo steroid production from immune cells has not been previously characterized. Here, we demonstrate production of the steroid pregnenolone by Th2 cells in vitro and in vivo in a helminth infection model. Single-cell RNA sequencing and quantit ...[more]

PMID: 24813893

Similar Datasets

Regulation of T cell gene expression and function by the steroid hormone precursor Pregnenolone

Project description:We report the transcriptional changes in primary T cells expanded from peripheral blood mononuclear cells (PBMCs) upon treatemnt with the steroid precursor, pregnenolone.

2024-03-20 | GSE225725 | GEO

Interleukin 13 disrupts type 2 pneumocyte stem cell activity

Project description:Chronic lung disease is increasing in prevalence and there is urgent need to advance our understanding of human lung biology in order to improve diagnosis and current treatments. The Th2 inflammatory cytokine Interleukin 13 (IL13) has been associated with both obstructive and fibrotic lung diseases, but its specific effect on the epithelial stem cells in the gas exchange compartment of the lung (alveolar space) has not been explored. Here, we use in vivo lung models of homeostasis and repair, ex vivo organoid platforms, and novel quantitative proteomic techniques to show that IL13 can directly disrupt the self-renewal and differentiation of both murine and human type 2 alveolar epithelial cells (AEC2s). We also show that IL13 promotes ectopic expression of markers typically associated with bronchiolar airway cells and commonly seen in the alveolar region of lung tissue from patients with idiopathic pulmonary fibrosis (IPF). Furthermore, we identify a number of proteins that are differentially secreted by AEC2s in response to IL13, suggesting that protein-based biomarkers may identify subsets of patients with pulmonary disease that is driven by “Th2-high” biology. This would allow us to understand some of the biological heterogeneity that exists in patients with chronic lung disease and to identify subsets of patients who may be more likely to respond to targeted anti-IL13 treatments.

2020-06-05 | PXD013006 | Pride

Single CD4+ cells after Nippostrongylus brasiliensis infection

Project description:We were interested in investigating the heterogeneity of CD4+ Th2 cells during infection response. In order to do so we injected Nippostrongylus brasiliensis (Nb) in recipient mice as this is known to elicit a Type 2 response. Mice were subcutaneously injected with Nb larvae and single CD4+ cells were isolated from mediastinal lymph nodes, mesenteric lymph nodes, and lungs 5 days after infection.

2016-04-13 | E-MTAB-4619 | biostudies-arrayexpress

Chromatin accessibility profile of Tfh cells during intestinal helminth infection

Project description:The goal of this study was to define the regulation of Tfh cell response during intestinal helminth infection. Using the helminth Trichuris muris, we performed ATAC-seq analysis on Tfh cells that develop during acute vs chronic helminth infection. We found that the epigenetic profile of acute vs chronic induced Tfh cells are distinct by adopting Th2 and Th1 cell phenotypes, respectively. For example, Th2-associated genes such as the Il4 locus was more accessible in acute-induced Tfh cells (and vice versa for Th1-associated genes in chronic-induced Tfh cells).

2021-10-20 | GSE186062 | GEO

Transcriptomic profile of Tfh cells during intestinal helminth infection

Project description:The goal of this study was to define the regulation of Tfh cell response during intestinal helminth infection. Using the helminth Trichuris muris, we performed RNA-seq analysis on Tfh cells that develop during acute vs chronic helminth infection. We found that the transcriptomic profile of acute vs chronic induced Tfh cells are distinct and they express Th2/Th1-associated genes, respectively.

2021-10-20 | GSE185992 | GEO

Gene expression profiling of differentiated HNECs stimulated by IL4, IL13, IFNalpha, IFNbeta, IFNgamma and controls

Project description:Background: In asthma, airway epithelium remodeling can already be detected during childhood, and epithelial cells are more susceptible to virus and oxidative stress. Their exact role in natural history and severity of children allergic respiratory disease remains however surprisingly unexplored. Aim: To analyze dysfunctions of epithelium in dust mite allergic respiratory disease (rhinitis ¬± asthma) in children. Methods: Expression profilings of nasal epithelial cells collected by brushing were performed on Affymetrix Hugene 1.0 ST arrays. All allergic patients were sensitized to dust mite. 19 patients had an isolated allergic rhinitis (AR). 14 patients had AR associated with asthma. Patients were compared to 12 controls, their severity and control being assessed according to NAEPP and ARIA criteria. Infections by respiratory viruses were excluded by real-time PCR measurements. Results: 61 probes were able to distinguish allergic rhinitis children from healthy controls. A majority of these probes was under the control of Th2 cytokines, as evidenced by parallel experiments performed on primary cultures of nasal epithelial cells. In uncontrolled asthmatic patients, we observed not only an enhanced expression of these Th2-responsive transcripts, but also a down-regulation of interferon-responsive genes. Conclusion: Our study identifies a Th2 driven epithelial phenotype common to all dust mite allergic children. Besides, it suggests that epithelium is involved in the severity of the disease. Expression profiles observed in uncontrolled asthmatic patients suggest that severity of asthma is linked at the same time to atopy and to impaired viral response. Differentiated HNECs gene expression profiling in context of Th2 and IFN cytokine stimulation Each condition was performed in triplicates: total of 21 samples

2012-01-05 | E-GEOD-19182 | biostudies-arrayexpress

Single mammalian cells compensate for differences in cellular volume and DNA copy number through independent global transcriptional mechanisms

Project description:We performed single-cell and bulk transcriptome profiling in two different human cell lines. We performed single-cell RNA sequencing in live and fixed cells. Single cell RNA sequencing of live and fixed cells, bulk RNA sequencing in two cell lines.

2015-03-01 | E-GEOD-66053 | biostudies-arrayexpress

Single cell mRNA -sequencing reveals cell-to-cell variation in three mouse ES cell culture conditions

Project description:We sequence mRNA from single mESCs from three culture conditions: serum + LIF, 2i + LIF and alternative 2i + LIF. We extensively analysed population and single cell gene expression to identify differences and similarities between conditions. This is a subset of data from ArrayExpress accession E-ERAD-186 (ENA: ERP003293)

2016-01-22 | E-MTAB-2600 | biostudies-arrayexpress

Distinct myeloid progenitor differentiation pathways uncovered through single cell RNA sequencing

Project description:Haematopoietic stem cells can differentiate into all blood cell types. In this process, cells become progressively restricted to a single cell type. The order in which differentiating cells loose lineage potential, and the prospective isolation of cells with a defined potential remains a long-standing question. We performed gene expression analysis of haematopoietic cells from Gata1-EGFP reporter mice, leading to a model for hematopoiesis where the initial lineage decision consists of a seperation of erythroid/megakaryocyte/mast cell/eosinophil potential from lymphopoietic/monocyte/neutrophil potential Find unbiased heterogeneity in the preGM hematopoietic progenitor population

2016-04-04 | E-GEOD-77029 | biostudies-arrayexpress

Schistosomes- exosomal miRNAs: modulators of T helper (CD+) cell differentiation

Project description:Schistosomiasis (Bilharziasis) is caused by the helminth Schistosoma. The acute stage of the infection extends from the penetration of the parasite through the host skin until it reaches its final location as adult female and male in copula, at the blood vessels around the gut or bladder. The female starts then depositing fertile eggs. The chronic stage of schistosomiasis starts with laying the eggs which promote a strong immunological Th2 response. It is unclear, so far, how this Th2 response gradually declines even though the parasitic worms live for years and continue to produce eggs. Here we demonstrate that schistosomes downregulate the differentiation toward the Th2 lineage by modulating the Th2 transcriptional program. Moreover, we found that adult schistosomes secrete micro-vesicles, possessing exosomal characteristics, and containing miRNAs, which have been found in Th2 cells that exposed indirectly to schistosomes. Importantly, we demonstrate that, the schistosoma miR-10 molecule targets MAP3K7, which consequently down modulates NF-kB. Since NF-kB is a critical factor necessary for Th2 differentiation and function, our results can at least partially explain, the decrease of the Th2 response over time of infection This exosomal worm-host immune cell interaction, can be further utilized for the development of novel diagnostic and therapeutic approaches to schistosomiasis.

2019-12-10 | PXD012525 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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