Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

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

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

PROVIDER: PRJNA694141 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR13509609_1.fastq.gz	Fastqsanger.gz
	SRR13509609_2.fastq.gz	Fastqsanger.gz
	SRR13509610.fastq.gz	Fastqsanger.gz
	SRR13509611_1.fastq.gz	Fastqsanger.gz
	SRR13509611_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 19

Similar Datasets

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 (RNA-seq)

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

| PRJNA694140 | 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)

| PRJNA474608 | ENA

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

| PRJNA726553 | ENA

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

2011-12-25 | E-GEOD-30041 | biostudies-arrayexpress

Escape from X chromosome inactivation occurs within topologically associated domains

Project description:The spatial proximity between regulatory elements and their target genes has a profound affect on gene expression. X Chromosome Inactivation (XCI) is an epigenetic process by which an entire chromosome is rendered, for the most part, transcriptionally silent. A few genes are known to escape XCI and the mechanism for this escape remains unclear. Here, using mouse trophectodermal stem cells, we address whether specific chromosomal interactions facilitate escape from XCI by bringing escape-specific regulatory elements in close proximity to gene promoters. Our results suggest a model where escape from XCI occurs within topologically associated domains. As such, escaping genes and the regulatory sequences required for their escape are likely located within close linear proximity to each other. The datasets provided include those generated from allele-specific 4C-Seq of genes escaping XCI, genes subject to XCI, and non-genic regions of the X chromosome. FASTQ files, text files containing genomic coordiantes, and BED aligmnets are provided. All sequences were mapped relative to mouse genome build mm9. Deep sequencing of circular chromosome conformation capture (4C-Seq) of genes escaping X inactivation in mouse trophoblast stem cells

2014-03-26 | E-GEOD-49111 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data