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Stable epigenetic programming of effector and central memory CD4 T cells occurs within 7 days of antigen exposure in vivo (RNA-seq)

ABSTRACT: Stable epigenetic programming of effector and central memory CD4 T cells occurs within 7 days of antigen exposure in vivo (RNA-seq)

PROVIDER: PRJNA694140 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13509625_1.fastq.gz	Fastqsanger.gz
	SRR13509625_2.fastq.gz	Fastqsanger.gz
	SRR13509626_1.fastq.gz	Fastqsanger.gz
	SRR13509626_2.fastq.gz	Fastqsanger.gz
	SRR13509627_1.fastq.gz	Fastqsanger.gz

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Stable epigenetic programming of effector and central memory CD4 T cells occurs within 7 days of antigen exposure in vivo

Project description:Stable epigenetic programming of effector and central memory CD4 T cells occurs within 7 days of antigen exposure in vivo

| PRJNA694139 | ENA

Stable epigenetic programming of effector and central memory CD4 T cells occurs within 7 days of antigen exposure in vivo (ATAC-seq)

Project description:Stable epigenetic programming of effector and central memory CD4 T cells occurs within 7 days of antigen exposure in vivo (ATAC-seq)

| PRJNA694141 | ENA

Stable Epigenetic Programming of Effector and Central Memory CD4 T Cells Occurs Within 7 Days of Antigen Exposure <i>In Vivo</i>.

Project description:T cell immunological memory is established within days of an infection, but little is known about the in vivo changes in gene regulatory networks accounting for their ability to respond more efficiently to secondary infections. To decipher the timing and nature of immunological memory we performed genome-wide analyses of epigenetic and transcriptional changes in a mouse model generating antigen-specific T cells. Epigenetic reprogramming for Th differentiation and memory T cell formation was already established by the peak of the T cell response after 7 days. The Th memory T cell program was associated with a gain of open chromatin regions, enriched for RUNX, ETS and T-bet motifs, which remained stable for 56 days. The epigenetic programs for both effector memory, associated with T-bet, and central memory, associated with TCF-1, were established in parallel. Memory T cell-specific regulatory elements were associated with greatly enhanced inducible Th1-biased responses during secondary exposures to antigen. Furthermore, memory T cells responded in vivo to re-exposure to antigen by rapidly reprograming the entire ETS factor gene regulatory network, by suppressing Ets1 and activating Etv6 expression. These data show that gene regulatory networks are epigenetically reprogrammed towards memory during infection, and undergo substantial changes upon re-stimulation.

| S-EPMC8181421 | biostudies-literature

Stable epigenetic programming of effector and central memory CD4 T cells occurs within 7 days of antigen exposure in vivo

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

2021-05-14 | GSE165348 | GEO

Stable epigenetic programming of effector and central memory CD4 T cells occurs within 7 days of antigen exposure in vivo (RNA-seq)

Project description:T cell immunological memory is established within days of an infection but little is known about the in vivo changes in gene regulatory networks which account for the ability of memory T cells to respond more efficiently to secondary infections. To decipher the timing and nature of immunological memory we performed genome-wide analyses of epigenetic and transcriptional changes in a mouse model generating antigen-specific T cells.

2021-05-14 | GSE165347 | GEO

Stable epigenetic programming of effector and central memory CD4 T cells occurs within 7 days of antigen exposure in vivo (ATAC-seq)

2021-05-14 | GSE165346 | GEO

Promoter-enhancer communication occurs primarily within Gene Unit Sub-TADs (GUSTs)

Project description:Promoter-enhancer communication occurs primarily within Gene Unit Sub-TADs (GUSTs)

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Transcriptional reprogramming by oxidative stress occurs within a predefined chromatin accessibility landscape

Project description:Transcriptional reprogramming by oxidative stress occurs within a predefined chromatin accessibility landscape

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Proinflammatory cytokines promote TET2-mediated DNA demethylation during CD8 T cell effector differentiation

Project description:CD8 T cell memory differentiation endows T cells with an ability to rapidly induce effector functions upon pathogen re-encounter. While it is well established that substantial epigenetic remodeling occurs during the effector stage of the immune response, the signaling events that imprint CD8 T cells with these stable epigenetic programs are not well-defined. To gain insight into the signaling determinants of effector-associated epigenetic programming among CD8 T cells, we explored the role of IL-12 in the imprinting of IFNg expression during human CD8 T cell priming. We observe that anti-CD3/CD28-mediated stimulation of human naïve CD8 T cells is not sufficient to induce substantial demethylation of the IFNg promotor. However, anti-CD3/CD28 stimulation in the presence of the inflammatory cytokine, IL-12, resulted in significant and stable demethylation of the IFNg locus that was commensurate with an increase in IFNg expression. We further show that IL-12-associated demethylation of the IFNg locus is coupled to cell division through TET2-dependent demethylation in an ex vivo human CAR T cell model system and an in vivo immunologically competent murine system. Collectively, these data illustrate that IL-12 signaling promotes TET2-mediated effector epigenetic programming in CD8 T cells during the primary immune response and serve as proof of concept that signal 3 cytokines can be used to guide the induction of epigenetically regulated traits among T cells used for adoptive immunotherapies.

2021-08-31 | GSE182968 | GEO

Programming human pluripotent stem cells into adipocytes

Project description:This SuperSeries is composed of the following subset Series: GSE30038: Programming human pluripotent stem cells into adipocytes [Affymetrix] GSE30039: Programming human pluripotent stem cells into adipocytes [Agilent] Refer to individual Series

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