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Strong basal/tonic TCR signals are associated with chromatin accessibility changes in naive CD4+ T cells

ABSTRACT: Strong basal/tonic TCR signals are associated with chromatin accessibility changes in naive CD4+ T cells

PROVIDER: PRJNA849017 | ENA |

REPOSITORIES: ENA

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Strong basal/tonic TCR signals are associated with gene expression changes in naive CD4+ T cells

Project description:Naïve T cells constantly experience TCR signals in response to self-peptides presented by MHC (pMHC) in vivo. The intensity of these basal or tonic TCR signals can be indirectly read out by expression of surrogate markers of tonic TCR signaling, including the Nur77-GFP transgene and Ly6c. The strength of tonic TCR signaling varies broadly across the naïve CD4+ T cell population and is correlated with functional heterogeneity.Cells that experience the most basal TCR signaling (Nur77-GFP hi, Ly6c lo) are hyporesponsive to peptide-MHC stimulation. Here we examine whether tonic TCR stimulation is associated with differences in mRNA expression.

2022-08-22 | GSE206073 | GEO

Strong basal/tonic TCR signals are associated with chromatin accessibility changes in naive CD4+ T cells

2022-08-22 | GSE206072 | GEO

Strong basal/tonic TCR signals are associated with gene expression changes in naive CD4+ T cells

Project description:Strong basal/tonic TCR signals are associated with gene expression changes in naive CD4+ T cells

| PRJNA849018 | ENA

Strong basal/tonic TCR signals are associated with transcriptional and epigenetic changes in naive CD4+ T cells

Project description:Strong basal/tonic TCR signals are associated with transcriptional and epigenetic changes in naive CD4+ T cells

| PRJNA849013 | ENA

Strong basal/tonic TCR signals are associated with transcriptional and epigenetic changes in naive CD4+ T cells

Project description:This SuperSeries is composed of the SubSeries listed below.

2022-08-22 | GSE206074 | GEO

Elucidation of the effects of tonic TCR stimulation and tissue environments of the chromatin status of naive CD4 T (TN) cells

Project description:Naive CD4 T (TN) cells show some degree of heterogeneity. However, mechanisms that alter TN cells are still largely unknown, and physiological importance in the phenotypic alteration of TN cells is unclear. Thus, to reveal the mechanisms that alter TN cell characteristics, we performed transposase-accessible chromatin with high-throughput sequencing (ATAC-seq) on TN cells from different secondary lymphoid organs with different strength of tonic TCR stimulation.

2024-03-01 | GSE215773 | GEO

Tonic TCR and IL-1beta signaling mediate phenotypic alterations of naive CD4+ T cells

Project description:Tonic TCR and IL-1beta signaling mediate phenotypic alterations of naive CD4+ T cells

| PRJNA890594 | ENA

Self-reactivity shapes functional diversity of naive CD8+ T cells by co-opting tonic type I interferon [Array]

Project description:The strength of the T cell receptor interaction with self-ligands affects antigen-specific immune responses. However, the precise role, functional relationship, and underlying mechanisms have not been elucidated completely. Here, we demonstrate that naive CD8+ T cells with relatively high self-reactivity are phenotypically heterogeneous owing to varied responses to type I interferon (T1IFN), resulting in three distinct subsets, CD5loLy6C–, CD5hiLy6C–, and CD5hiLy6C+ cells. CD5hiLy6C+ cells differ from CD5loLy6C– and CD5hiLy6C– cells in their gene expression profiles and functional properties. Moreover, CD5hiLy6C+ cells demonstrate more extensive antigen-specific expansion upon viral infection, with enhanced differentiation into terminal effector cells and reduced memory cell generation. Such unique features of CD5hiLy6C+ cells are imprinted in a steady-state and observed even for those of monoclonal CD8+ T cell populations in a T1IFN dependent fashion. These findings demonstrate that self-reactivity shapes the functional diversity of naive CD8+ T cells by co-opting tonic T1IFN signaling.

2021-06-19 | GSE178445 | GEO

Self-reactivity shapes functional diversity of naive CD8+ T cells by co-opting tonic type I interferon [RNA-Seq_2]

2021-06-19 | GSE178448 | GEO

Self-reactivity shapes functional diversity of naive CD8+ T cells by co-opting tonic type I interferon [RNA-Seq_1]

2021-06-19 | GSE178447 | GEO