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Transcriptome analysis of naïve or stimulated WT and TRIM28 KO CD4 T cells (RNA-seq)

ABSTRACT: Transcriptome analysis of naïve or stimulated WT and TRIM28 KO CD4 T cells (RNA-seq)

PROVIDER: PRJNA589770 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR10461950_1.fastq.gz	Fastqsanger.gz
	SRR10461950_2.fastq.gz	Fastqsanger.gz
	SRR10461951_1.fastq.gz	Fastqsanger.gz
	SRR10461951_2.fastq.gz	Fastqsanger.gz
	SRR10461952_1.fastq.gz	Fastqsanger.gz

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Transcriptome analysis of naïve or stimulated WT and TRIM28 KO CD4 T cells (Affymetrix)

Project description:Transcriptome analysis of naïve or stimulated WT and TRIM28 KO CD4 T cells (Affymetrix)

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Comparison of gene expression in Wild type and T cell-specific conditional Trim28 KO in TCR stimulated and un-stimulated naive CD4 positive and T regulatory cells

Project description:A microarray study was performed in unstimulated and TCR-stimulated CD4 + T cells and Treg in wild type and conditional Trim28 KO mice to identify genes that are regulated by Trim28. These experiments constitute a portion of the study described below: Paper Abstract: Peripheral T cell activation and differentiation into specialized effectors are regulated by TCR- and cytokine-mediated signals that induce clonal expansion and unique transcriptional factors. These processes may include active chromatin modification by nuclear factors. In search of such molecules, we found Trim28, a component of large nuclear chromatin-regulatory complex is tightly controlled upon TCR stimulation at the level of phosphorylation, and examined global impact of Trim28 loss in especially CD4+ T cells, by generating T cell-specific conditional Trim28 KO mice (CKO). CD4+ T cells from CKO mice showed defective IL-2 production and T cell proliferation associated with defective upregulation of cell-cycle associated proteins. Accordingly, young CKO showed T-lymphopenia. Surprisingly, Trim28 CKO mice eventually accumulated auto-reactive memory-phenotype T cells that produced inflammatory IL-17. CKO mice are also susceptible to induced auto-inflammatory disease with TH-17 dominant immune response. Loss of Trim28 showed aberrant accumulation of TH-17 and FoxP3+ T cells, two key T cells in inflammation vs. tolerance. We found CKO T cells showed a cell-extrinsic promotion of TH-17 and FoxP3+ T cell development by a mechanism involving overproduction of TGF-beta. Our study revealed unexpected roles of Trim28, a global chromatin regulator in both T cell activation and tolerance. Trim28 conditional KO mice and age-matched control mice were sacrificed, and neive CD4+ T cells (CD4+CD62+CD25-) and Treg (CD4+CD62+CD25+) were sorted. Stimulation of naive T cells was done with anti-CD3 and anti-CD28 for 13 hours. We collected quadruplicates for each group.

2012-04-28 | E-GEOD-32224 | biostudies-arrayexpress

Transcriptome analysis of naïve or stimulated WT and TRIM28 KO CD4 T cells (Affymetrix)

Project description:Critical role for TRIM28 and HP1b/g in the epigenetic control of T cell metabolic reprogramming and effector differentiation The study explores the role of gene silencing by TRIM28, an adaptor protein for histone binding modules , in CD4 T cell function.

2019-11-16 | GSE140444 | GEO

Transcriptome analysis of naïve or stimulated WT and TRIM28 KO CD4 T cells (RNA-seq)

2019-11-16 | GSE140445 | GEO

Comparison of gene expression in Wild type and T cell-specific conditional Trim28 KO in TCR stimulated and un-stimulated naive CD4 positive and T regulatory cells

2012-04-29 | GSE32224 | GEO

Transcriptome analysis of WT and TRIM28 KO CD4 T cells, naïve or stimulated with anti-CD3 (plate-bound) and anti-CD28 (soluble) in Th0, Th1, Th2, Th17 or Treg conditions

2019-11-16 | GSE140443 | GEO

RNA-seq of gonadal adipose tissue from male and female Trim28-WT and Trim28 adipose specific KO mice

Project description:Many genes have been implicated in WAT lipid metabolism, including tripartite motif containing 28 (Trim28), a gene proposed to primarily influence adiposity via epigenetic mechanisms in embryonic development. We set out to determine if adipose specific deletion of Trim28 led to changes in adipose tissue function and molecular phenotype. We performed transcriptomics analysis on adipose tissue taken from WT and adipose specific Trim28 KO mice to investigate their molecular phenotype, and to identify pathways altered in KO animals.

2020-11-25 | E-MTAB-9809 | biostudies-arrayexpress

Bcl6 controlled gene expression in naïve CD4 T cells (Tf0)

Project description:Gene expression data from wild-type and Bcl6-/- naive CD4 T cells In order to find genes regulated by Bcl6 in follicular helper T cells Naïve CD4 T cells were sorted from wild-type (WT) and T cell-specific conditional Bcl6-/- (KO) mice-- 8 samples, 4 WT and 4 KO

2015-04-08 | E-GEOD-67622 | biostudies-arrayexpress

Bcl6 controlled gene expression in naïve CD4 T cells (Tfh)

2015-04-08 | E-GEOD-67623 | biostudies-arrayexpress

Comparison of gene expression in mouse CD4 naïve and activated T-cells

Project description:Gene expression changes when naïve T-cells are stimulated with antigen. We have stimulated these cells with surrogate antigens (aCD3-aCD28 coated beads) for 48 hours, and then did microarray experiment to identify differentially exprssed genes in the two conditions CD4 naïve T-cells from C57/Bl6 mouse were stimulated (activated) with aCD3-aCD28 coated beads for 48 hours and used for microarray experiment

2011-12-01 | E-GEOD-30196 | biostudies-arrayexpress

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