Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Single-cell transcriptomic and single-cell ATAC analysis of virtual memory T cells In vitro induced from WT and Cd4-Cre Rpa1fl/fl CD8+ T cells

ABSTRACT: Virtual memory CD8+ T (TVM) cells are a distinct subset of antigen-inexperienced cells with rapid effector potential, but their regulatory checkpoints remain elusive. Here, using single-cell RNA sequencing and single-cell ATAC sequencing, we found that loss of RPA1 promotes chromatin remodeling in CD8+ T cells, leading to enhanced accessibility at EOMES-associated loci and activation of transcriptional programs that drive TVM cell polarization.

ORGANISM(S): Mus musculus

PROVIDER: GSE329123 | GEO | 2026/04/30

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

DNA:RNA ImmunoPrecipitation (DRIP) sequencing data of virtual memory T cells In vitro induced from WT and Cd4-Cre Rpa1fl/fl CD8+ T cells

Project description:Virtual memory CD8+ T (TVM) cells are a distinct subset of antigen-inexperienced cells with rapid effector potential, but their regulatory checkpoints remain elusive. Here, using DRIP sequencing, we found that loss of RPA1 promotes aberrant R-loop accumulation, leading to enhanced chromatin accessibility and subsequent TVM cell differentiation.

2026-04-29 | GSE329032 | GEO

RNA-seq data of virtual memory T cells In vitro induced from WT and DUSP2-/- CD8+ T cells

Project description:Virtual memory CD8+ T (TVM) cells are a distinct subset of antigen-inexperienced cells with rapid effector potential, but their regulatory checkpoints remain elusive. Here, using bulk RNA sequencing, we found that DUSP2 intrinsically limits the differentiation of highly activated TVM cells, thereby constraining antiviral immunity.

2026-04-29 | GSE329037 | GEO

DNA:RNA ImmunoPrecipitation (DRIP) sequencing data of virtual memory T cells In vitro induced from WT and Dusp2-/- CD8+ T cells

Project description:Virtual memory CD8+ T (TVM) cells are a distinct subset of antigen-inexperienced cells with rapid effector potential, but their regulatory checkpoints remain elusive. Here, using DRIP sequencing, we found that loss of DUSP2 promotes aberrant R-loop accumulation, leading to enhanced chromatin accessibility and subsequent TVM cell differentiation.

2026-04-29 | GSE329041 | GEO

Single-cell transcriptomic analysis of CD8+ T cells from peripheral blood of WT and Dusp2-/- mice

Project description:Virtual memory CD8+ T (TVM) cells are a distinct subset of antigen-inexperienced cells with rapid effector potential, but their regulatory checkpoints remain elusive. Here, using single-cell transcriptomic profiling, we found that depletion of DUSP2 drives the expansion of CD44super-high TVM subset with heightened effector signatures.

2026-04-29 | GSE329034 | GEO

Virtual memory T-cells orchestrate extra-lymphoid responses conducive to resident memory

Project description:A primary immune response is typically initiated in secondary lymphoid organs. Virtual memory CD8+ T (TVM) cells are antigen-inexperienced T cells of a central-memory phenotype, acquired through self antigen-driven homeostatic proliferation. Unexpectedly, here we find that, TVM cells are composed of CCR2+ and CCR2- subsets that differentially elaborate a spectrum of effector- and memory-poised functions directly in the tissue. During a primary flu infection, TVM cells rapidly infiltrate the lung in the first day and execute early viral control. TVM cells that recognize viral antigen are retained in the tissue, clonally expand independent of secondary lymphoid organs, and preferentially give rise to tissue-resident memory cells. By orchestrating an extra-lymphoid primary response, heterogenous TVM cells bridge innate reaction and adaptive memory directly in the infected tissue.

2021-06-15 | GSE148364 | GEO

IL-4 induces CD22 expression to restrain the effector program of self-reactive virtual memory T cells

Project description:Parasitic helminths induce the production of interleukin (IL)-4 which causes the expansion of virtual memory CD8+ T cells (TVM), a cell subset contributing to the control of viral coinfection. However, the mechanisms regulating IL-4-dependent TVM activation and expansion during worm infection remain ill defined. We used single-cell RNA sequencing of CD8+ T cells to investigate IL-4-dependent TVM responses upon helminth infection in mice. Gene signature analysis of CD8+ T cells identified a cell cluster marked by CD22, a canonical regulator of B cell activation, as a specific and selective surface marker of IL-4-induced TVM cells. CD22+ TVM were enriched for IFN-γ and granzyme A and retained a diverse TCR repertoire, while enriched in CDR3 sequences with features of self-reactivity. Deletion of CD22 expression in CD8+ T cells enhanced TVM responses to helminth infection, indicating that this inhibitory receptor modulates TVM responses. Thus, helminth-induced IL-4 drives the expansion and activation of self-reactive TVM in the periphery that is counter-inhibited by CD22

2025-01-23 | GSE228564 | GEO

Effect of Aiolos on virtual memory T cell differentiation and function [RNA-Seq]

Project description:Virtual memory CD8+ T (TVM) cells provide rapid bystander protection during an infection despite their antigen naivety. In addition, these cells are also capable of antigen-specific response, making them an intriguing part of both the host innate and adaptive immune repertoire. While the innate and adaptive capabilities of these cells have been well characterized, much remains to be defined regarding the mechanisms governing their differentiation and function. Here, we investigate the role of the Ikaros zinc-finger (IkZF) transcription factor Aiolos in regulating CD8+ TVM generation and function. Using bulk RNA-sequencing and Assay for Transposase-Accessible Chromatin (ATAC)-sequencing, we identify differences in gene expression as well as accessibility profiles of key TVM effectors and regulators in TVM cells isolated from the spleen of control (wild-type) and Aiolos-deficient (Ikzf3-/-) mice. These studies will provide mechanistic insight into the regulation of TVM differentiation and function by Aiolos.

2025-11-10 | GSE284441 | GEO

Effect of Aiolos on virtual memory T cell differentiation and function [ATAC-Seq]

2025-11-10 | GSE305887 | GEO

A distinct CD8+ T cell subset derived from virtual memory T cells causes alopecia areata through innate-like cytotoxicity [scRNA-seq]

Project description:Virtual memory T (TVM) cells are a T-cell subtype that exhibit a memory phenotype without prior exposure to a foreign antigen. Although several recent studies suggest that TVM cells exert anti-viral and anti-bacterial function, pathological roles of TVM cells causing inflammatory diseases have not been studied. Here, we identified a novel CD8+ T-cell subset (CD44s-hiCD49dlo CD8+ T cells), which is originated from TVM cells and can cause a chronic inflammatory disease, alopecia areata (AA). In the skin of alopecic mice, we detected a distinct TVM-cell subpopulation characterized by superior expression of CD44 and features of tissue residency, which was transcriptionally, phenotypically, and functionally distinct from conventional CD8+ TVM cells. Mechanistically, this cell population could be induced from conventional TVM cells by IL-12, IL-15, and IL-18 stimulation. Moreover, the pathological activity of CD44s-hiCD49dlo CD8+ T cells was mediated by NKG2D-depedent innate-like cytotoxicity against target cells, which was further augmented by IL-15 stimulation and triggered the onset of disease. Collectively, our results suggest a new immunological mechanism through which TVM cells can cause chronic inflammatory disease by innate-like cytotoxicity.

2023-05-16 | GSE229581 | GEO

A distinct CD8+ T cell subset derived from virtual memory T cells causes alopecia areata through innate-like cytotoxicity [RNA-seq]

2023-05-16 | GSE229145 | GEO