Transcriptomics,Multiomics

Dataset Information

16

Single-cell transcriptional profiling of Th17 cells, harvested at peak of disease in EAE from CNS [EAE-CNS-IL-17A/GFP+]


ABSTRACT: Extensive cellular heterogeneity exists within specific immune-cell subtypes classified as a single lineage, but its molecular underpinnings are rarely characterized at a genomic scale. Here, we use single-cell RNA-seq to investigate the molecular mechanisms governing heterogeneity and pathogenicity of Th17 cells isolated from the central nervous system (CNS) and lymph nodes (LN) at the peak of autoimmune encephalomyelitis (EAE) or polarized in vitro under either pathogenic or non-pathogenic differentiation conditions. Computational analysis reveals a spectrum of cellular states in vivo, including a self-renewal state, Th1-like effector/memory states and a dysfunctional/senescent state. Relating these states to in vitro differentiated Th17 cells, unveils genes governing pathogenicity and disease susceptibility. Using knockout mice, we validate four novel genes: Gpr65, Plzp, Toso and Cd5l (in a companion paper). Cellular heterogeneity thus informs Th17 function in autoimmunity, and can identify targets for selective suppression of pathogenic Th17 cells while sparing non-pathogenic tissue-protective ones. Single-cell transcriptional profiling of Th17 cells, harvested at peak of disease in EAE from CNS

ORGANISM(S): Mus musculus  

SUBMITTER: Nir Yosef   Jellert Gaublomme  Aviv Regev 

PROVIDER: E-GEOD-75107 | ArrayExpress | 2015-11-20

SECONDARY ACCESSION(S): GSE75107SRP066314PRJNA302461

REPOSITORIES: GEO, ArrayExpress, ENA

Dataset's files

Source:
Action DRS
E-GEOD-75107.idf.txt Idf
E-GEOD-75107.processed.1.zip Processed
E-GEOD-75107.processed.2.zip Processed
E-GEOD-75107.sdrf.txt Txt
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Publications


Extensive cellular heterogeneity exists within specific immune-cell subtypes classified as a single lineage, but its molecular underpinnings are rarely characterized at a genomic scale. Here, we use single-cell RNA-seq to investigate the molecular mechanisms governing heterogeneity and pathogenicity of Th17 cells isolated from the central nervous system (CNS) and lymph nodes (LN) at the peak of autoimmune encephalomyelitis (EAE) or differentiated in vitro under either pathogenic or non-pathogeni  ...[more]

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