Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Human epigenetic and transcriptional T cell differentiation atlas for identifying functional T cell-specific enhancers [ATAC HD]

ABSTRACT: Human epigenetic and transcriptional T cell differentiation atlas for identifying functional T cell-specific enhancers [ATAC HD]

PROVIDER: PRJNA744248 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR15054800_1.fastq.gz	Fastqsanger.gz
	SRR15054800_2.fastq.gz	Fastqsanger.gz
	SRR15054900_1.fastq.gz	Fastqsanger.gz
	SRR15054900_2.fastq.gz	Fastqsanger.gz
	SRR15054801_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 434

Similar Datasets

Human epigenetic and transcriptional T cell differentiation atlas for identifying functional T cell-specific enhancers [RNA HD]

Project description:Human epigenetic and transcriptional T cell differentiation atlas for identifying functional T cell-specific enhancers [RNA HD]

| PRJNA744261 | ENA

Human epigenetic and transcriptional T cell differentiation atlas for identifying functional T cell-specific enhancers

Project description:Human epigenetic and transcriptional T cell differentiation atlas for identifying functional T cell-specific enhancers

| PRJNA744266 | ENA

Human epigenetic and transcriptional T cell differentiation atlas for identifying functional T cell-specific enhancers [RNA melanoma]

Project description:Human epigenetic and transcriptional T cell differentiation atlas for identifying functional T cell-specific enhancers [RNA melanoma]

| PRJNA744268 | ENA

Human epigenetic and transcriptional T cell differentiation atlas for identifying functional T cell-specific enhancers [ATAC melanoma]

Project description:Human epigenetic and transcriptional T cell differentiation atlas for identifying functional T cell-specific enhancers [ATAC melanoma]

| PRJNA744258 | ENA

Human epigenetic and transcriptional T cell differentiation atlas for identifying functional T cell-specific enhancers [ATAC HD]

Project description:ATAC-seq was used to study the chromatin landscape of T cell subsets from PBMCs healthy donors.

2022-03-08 | GSE179593 | GEO

Human epigenetic and transcriptional T cell differentiation atlas for identifying functional T cell-specific enhancers [RNA HD]

Project description:RNA-seq was used to study the transcriptional landscape of T cell subsets from PBMCs of healthy donors.

2022-03-08 | GSE179609 | GEO

4C-seq HD project

Project description:Temporal dynamics and mechanisms underlying epigenetic changes in Huntington’s disease (HD),a neurodegenerative disease primarily affecting the striatum, remain unclear. Using slow progressing HDknockinmice,we have generated chromatin immunoprecipitation coupled with sequencing data for RNA polymerase II and histone modifications associated with active enhancers (H3K27ac) and repressive chromatin (H3K27me3), from neuronal, non-neuronal and bulk striatal tissue at two early disease stages. Data integration with cell type-specific transcriptomic databases shows that the HD mutation early accelerates age-related reprogramming of neuronal and glial cell identities at both epigenetic and transcriptional levels. Circular chromosome conformation capture followed by sequencing data using HD mouse striatum showed alterations both at neuronal super-enhancer and CAG expanded disease loci. Using these data to model higher-order chromatin architecture indicated that HD CAG expansion mutation impairs chromatin insulation and gene regulation. Thus, both age-dependent and disease locus-specific mechanisms contribute to early remodelling of chromatin structure in HD striatum.

2020-10-16 | GSE144699 | GEO

IPF Cell Atlas

Project description:IPF Cell Atlas

| PRJNA563828 | ENA

Endothelial Cell Atlas

Project description:Endothelial Cell Atlas

| PRJEB33116 | ENA

Human epigenetic and transcriptional T cell differentiation atlas for identifying functional T cell-specific enhancers.

Project description:The clinical benefit of T cell immunotherapies remains limited by incomplete understanding of T cell differentiation and dysfunction. We generated an epigenetic and transcriptional atlas of T cell differentiation from healthy humans that included exhausted CD8 T cells and applied this resource in three ways. First, we identified modules of gene expression and chromatin accessibility, revealing molecular coordination of differentiation after activation and between central memory and effector memory. Second, we applied this healthy molecular framework to three settings-a neoadjuvant anti-PD1 melanoma trial, a basal cell carcinoma scATAC-seq dataset, and autoimmune disease-associated SNPs-yielding insights into disease-specific biology. Third, we predicted genome-wide cis-regulatory elements and validated this approach for key effector genes using CRISPR interference, providing functional annotation and demonstrating the ability to identify targets for non-coding cellular engineering. These studies define epigenetic and transcriptional regulation of human T cells and illustrate the utility of interrogating disease in the context of a healthy T cell atlas.

| S-EPMC9214622 | biostudies-literature

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