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E-GEOD-58078

ABSTRACT: Microarray analysis of WT and Tfap4-KO CD8 T cells during early activation

OTHER RELATED OMICS DATASETS IN: PRJNA248823PRJNA248821PRJNA248826PRJNA248824PRJNA248825PRJNA248822

PROVIDER: E-GEOD-58078 | ExpressionAtlas | 2015-07-29

REPOSITORIES: ExpressionAtlas

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			Action	DRS
	E-GEOD-58078-analysis-methods.tsv	Tabular
	E-GEOD-58078-atlasExperimentSummary.Rdata	Rdata
	E-GEOD-58078-configuration.xml	Xml
	E-GEOD-58078-percentile-ranks.tsv	Tabular
	E-GEOD-58078.condensed-sdrf.tsv	Tabular

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Mus musculus

Project description:Microarray analysis of WT and Tfap4-KO CD8 T cells during early activation

| PRJNA248822 | ENA

RNA sequencing analysis of transferred C1qbp sufficient and deficient CD8+ T cells sorted from donor mice post infection with LCMV Armstrong

Project description:Tthis study is aimed to explore how C1qbp deficiency affects the mRNA expressing profiling during the differentiation stage of CD8+ T cells.Naïve WT and C1qbp KO P14 cells and transferred WT and C1qbp KO P14 cells sorted from the spleen of donor mice on day 3, 5, 7 post-infection with LCMV Armstrong were collected and treated for RNA-seq. RNA-Seq analysis revealed transcriptomic changes between WT and C1qbp KO CD8+ T cells. Naïve WT and C1qbp KO CD8+ T cells showed similar gene expressing profiling. On day 3, 5, 7 post-infection with LCMV Armstrong, WT and C1qbp KO CD8+ T cells showed 341, 1,164 and 437 differentially expressed genes respectively.

2021-06-08 | GSE176310 | GEO

De novo DNA methylation by DNA Methyltransferase 3a controls early effector CD8+ T cell fate decisions following activation

Project description:DNMT3a is a de novo DNA methyltransferase expressed robustly after T cell activation that regulates plasticity of CD4+ T cell cytokine expression. Here we show that DNMT3a is critical for directing early CD8+ T cell effector and memory fate decisions. While effector function of DNMT3a knockout T cells is normal, they develop more memory precursor and fewer terminal effector cells in a T cell intrinsic manner compared to wild-type animals. Rather than increasing plasticity of differentiated effector CD8+ T cells, loss of DNMT3a biases differentiation of early effector cells into memory precursor cells. This is attributed in part to ineffective repression of Tcf1 expression in knockout T cells, as DNMT3a localizes to the Tcf7 promoter and catalyzes its de novo methylation in early effector WT CD8+ T cells. This data identifies DNMT3a as a crucial regulator of CD8+ early effector cell differentiation and effector versus memory fate decisions. Examination of global genomic DNA methylation by MBD-seq in naÃ¯ve CD8 T cells and CD8 T cells 8 days post Vaccinia-Ova infection, comparing OT1 TCR-Tg CD8 T cells isolated from WT and T cell conditional DNMT3a KO mice.

2016-08-20 | E-GEOD-85823 | biostudies-arrayexpress

mRRBS analysis of C1qbp sufficient and deficient CD8+ T cells sorted from mice post infection with LCMV Armstrong

Project description:This study is aimed to explore whether C1qbp deficiency affects the DNA methylation status during the differentiation stage of CD8+ T cells. Transferred WT and C1qbp KO P14 cells sorted from the spleen of donor mice on day 5 post-infection with LCMV Armstrong were collected. Genomic DNA was isolated for mRRBS. mRRBS analysis provided evidence of DNA methylation changes between WT and C1qbp KO CD8+ T cells. Our study have shown that, on day 5 post-infection with LCMV Armstrong, C1qbp KO CD8+ T cells have increased level of Global DNA methylation. Moreover, C1qbp KO CD8+ T cells show hegher DNA methylation at some effector cells-signature genes.

2021-08-21 | GSE182519 | GEO

ATAC-seq analysis of C1qbp sufficient and deficient CD8+ T cells sorted from mice post infection with LCMV Armstrong

Project description:This study is aimed to explore whether C1qbp deficiency affects the epigenetic modification during the differentiation stage of CD8+ T cells. Transferred WT and C1qbp KO P14 cells sorted from the spleen of donor mice on day 5 post-infection with LCMV Armstrong were collected and treated for ATAC-seq. ATAC-Seq analysis provided sufficient but not necessary evidence of epigenetic changes between WT and C1qbp KO CD8+ T cells. Our study have shown that, on day 5 post-infection with LCMV Armstrong, even WT and C1qbp KO CD8+ T cells have different mRNA expressing profiling, the ATAC-seq shows slight changes in chromatin accessibility of indicated genes.

2021-06-09 | GSE176369 | GEO

CUT-tag analysis of C1qbp sufficient and deficient CD8+ T cells

Project description:This study is aimed to Investigate whether C1qbp deficiency affects the histone modification during the differentiation stage of CD8+ T cells. Transferred WT and C1qbp KO P14 cells sorted from the spleen of donor mice on day 5 post-infection with LCMV Armstrong were collected and treated for CUT-tag. CUT-tag-Seq analysis provided evidence of histone modification changes between WT and C1qbp KO CD8+ T cells. Our study shows that on day 5 post-infection with LCMV Armstrong, along with mRNA expressing profiling, the CUT-tag-seq exhibits obvious changes in H3K27me3 and H3K27Ac modification of indicated genes of WT and C1qbp KO CD8+ T cells.

2021-06-09 | GSE176368 | GEO

Effect of loss of PKC theta and p50+cRel on gene expression post T-cell stimulation

Project description:OT-1 Transgenic CD8 T-cells were isolated from spleens of WT, PKCθ theta KO, and p50 cRel DKO mice. The T-cells were either cultured with non-pulsed DC (WT only and signified as "WT - UN") or with BMDCs pulsed with the OVA peptide SIINFEKL (N4) (WT, PKCθ theta KO, and p50 cRel DKO and signified as 'genotype - N4') at a ratio of 1:10 (DC:T-cell) for 18 hours. DCs then were depleted from the culture and RNA was made from the T-cells to measure gene expression at the early / late stage of T-cell activation

2014-12-01 | GSE61758 | GEO

Investigation of the functional contribution of Riplet in effector CD8 T cells

Project description:To understand the function of Riplet in effector CD8 T cells, we have employed whole genome microarray expression profiling of effector CD8 T cells from wild-type (WT) and Riplet knockout (KO) mice. Naive CD8 T cells isolated from splenocytes in WT and Riplet KO mice were stimulated with anti-CD3 and anti-CD28 Abs and after resting culture, restimulated with anti-CD3 Ab in vitro and mRNA was isolated.

2021-01-27 | GSE160496 | GEO

Gene expression data from WT and TET2cKO CD8+ T cells activated in vitro

Project description:The epigenetic modifier TET2 plays a role in cell fate decisions in hematopeotic stem cells and CD4+ Th1 and Th17 differentiation. Here, we demonstrate that loss of TET2 promotes CD8+ memory differentiation following acute viral infection with LCMV-Armstrong. To identify early gene expression changes following TCR activation in WT versus TET2cKO CD8+ T cells, we isolated naive CD8+ T cells and activated them for three days with anti-CD3/CD28+IL-2 and performed microarray analysis.

2017-02-22 | GSE95147 | GEO

Genome-wide expression study of the early/innate responses of murine B and T cells to MCMV infection

Project description:Murine Cytomegalovirus (MCMV) infection leads to early activation of various immune cells, including B and T lymphocytes, before the actual initiation of antigen-specific adaptive immunity. This activation is partly driven by innate cytokines, including type I interferon (IFN), which are induced early after infection. The objective of this study was to address the role of type I IFN in shaping early/innate B and T cell responses to a primary acute viral infection. In order to decipher the specific impact of IFN-I on cell subsets, we performed a genome-wide expression analysis on WT splenic B and CD8 T lymphocytes isolated from C57BL/6 [CD45.1 WT / CD45.2 IFNAR-KO] mixed bone marrow chimera mice. This study complements series GSE39555, which focused on early responses of NK cells and of the two subsets of conventional dendritic cells. This study includes data from B and CD8 T lymphocytes purified by flow cytometry sorting from the spleen of bone marrow chimera (BMC) mice, under steady-state or MCMV conditions. Two independent replicates were made for each cell type, from two independent pools of spleens from uninfected or d1.5 MCMV-infected BMC 5-8 mice, and were hybridized on 3 separate batches of GeneChips.

2013-04-03 | E-GEOD-45365 | biostudies-arrayexpress

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