Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

P53 rapidly restructures 3D chromatin organization to trigger a transcriptional response

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Homo sapiens

PROVIDER: GSE235947 | GEO | 2024/04/17

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

p53 rapidly restructures 3D chromatin organization to trigger a transcriptional response [HiC]

Project description:Activation of the p53 tumor suppressor triggers a transcriptional program to control cellular response to stress. However, the molecular mechanisms by which p53 controls gene transcription are not completely understood. Here, using a multi-omics integration framework, we uncover the critical role of spatio-temporal genome architecture in this process. We demonstrate that p53 drives direct and indirect changes in genome compartments, topologically associating domains and DNA loops within minutes of its activation, which escort the p53 transcriptional program along time. Focused on p53-bound enhancers, we report a core transcriptional program of 340 genes directly regulated by p53 over distance, most of these not previously identified. Finally, we showcase that p53 controls transcription of distal genes through newly formed and pre-existing enhancer-promoter loops in a cohesin dependent manner. Taken together, our findings demonstrate a previously unappreciated architectural role of p53 as regulator at distinct topological layers and provide a reliable set of new p53 direct target genes that may help future designs of p53-based cancer therapies.

2024-04-17 | GSE235944 | GEO

p53 rapidly restructures 3D chromatin organization to trigger a transcriptional response [PCHiC]

2024-04-17 | GSE236373 | GEO

p53 rapidly restructures 3D chromatin organization to trigger a transcriptional response [ChIP-seq]

2024-04-17 | GSE236372 | GEO

p53 rapidly restructures 3D chromatin organization to trigger a transcriptional response [RNA-seq]

2024-04-17 | GSE235946 | GEO

p53 rapidly restructures 3D chromatin organization to trigger a transcriptional response

Project description:p53 rapidly restructures 3D chromatin organization to trigger a transcriptional response

| PRJNA988078 | ENA

p53 rapidly restructures 3D chromatin organization to trigger a transcriptional response [HiC]

Project description:p53 rapidly restructures 3D chromatin organization to trigger a transcriptional response [HiC]

| PRJNA988081 | ENA

p53 rapidly restructures 3D chromatin organization to trigger a transcriptional response [PCHiC]

Project description:p53 rapidly restructures 3D chromatin organization to trigger a transcriptional response [PCHiC]

| PRJNA990725 | ENA

p53 rapidly restructures 3D chromatin organization to trigger a transcriptional response [RNA-seq]

Project description:p53 rapidly restructures 3D chromatin organization to trigger a transcriptional response [RNA-seq]

| PRJNA988080 | ENA

p53 rapidly restructures 3D chromatin organization to trigger a transcriptional response [ChIP-seq]

Project description:p53 rapidly restructures 3D chromatin organization to trigger a transcriptional response [ChIP-seq]

| PRJNA990719 | ENA

Genome-Scale Imaging of the 3D Organization and Transcriptional Activity of Chromatin.

Project description:The 3D organization of chromatin regulates many genome functions. Our understanding of 3D genome organization requires tools to directly visualize chromatin conformation in its native context. Here we report an imaging technology for visualizing chromatin organization across multiple scales in single cells with high genomic throughput. First we demonstrate multiplexed imaging of hundreds of genomic loci by sequential hybridization, which allows high-resolution conformation tracing of whole chromosomes. Next we report a multiplexed error-robust fluorescence in situ hybridization (MERFISH)-based method for genome-scale chromatin tracing and demonstrate simultaneous imaging of more than 1,000 genomic loci and nascent transcripts of more than 1,000 genes together with landmark nuclear structures. Using this technology, we characterize chromatin domains, compartments, and trans-chromosomal interactions and their relationship to transcription in single cells. We envision broad application of this high-throughput, multi-scale, and multi-modal imaging technology, which provides an integrated view of chromatin organization in its native structural and functional context.

| S-EPMC7851072 | 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