Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Dynamic regulation of chromatin accessibility by pluripotency transcription factors across the cell cycle

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

ORGANISM(S): Mus musculus

PROVIDER: GSE134680 | GEO | 2019/11/26

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Dynamic regulation of chromatin accessibility by pluripotency transcription factors across the cell cycle.

Project description:The pioneer activity of transcription factors allows for opening of inaccessible regulatory elements and has been extensively studied in the context of cellular differentiation and reprogramming. In contrast, the function of pioneer activity in self-renewing cell divisions and across the cell cycle is poorly understood. Here we assessed the interplay between OCT4 and SOX2 in controlling chromatin accessibility of mouse embryonic stem cells. We found that OCT4 and SOX2 operate in a largely independent manner even at co-occupied sites, and that their cooperative binding is mostly mediated indirectly through regulation of chromatin accessibility. Controlled protein degradation strategies revealed that the uninterrupted presence of OCT4 is required for post-mitotic re-establishment and interphase maintenance of chromatin accessibility, and that highly OCT4-bound enhancers are particularly vulnerable to transient loss of OCT4 expression. Our study sheds light on the constant pioneer activity required to maintain the dynamic pluripotency regulatory landscape in an accessible state.

| S-EPMC6890464 | biostudies-literature

Dynamic regulation of chromatin accessibility by pluripotency transcription factors across the cell cycle [OCT4-AID ATAC-seq]

2019-11-26 | GSE134675 | GEO

Dynamic regulation of chromatin accessibility by pluripotency transcription factors across the cell cycle [MD-OCT4 ChIP-seq]

2019-11-26 | GSE134674 | GEO

Dynamic regulation of chromatin accessibility by pluripotency transcription factors across the cell cycle [MD-OCT4 ATAC-seq]

2019-11-26 | GSE134673 | GEO

Dynamic regulation of chromatin accessibility by pluripotency transcription factors across the cell cycle [OCT4OFF SOX2OFF ChIP-seq]

2019-11-26 | GSE134669 | GEO

Dynamic regulation of chromatin accessibility by pluripotency transcription factors across the cell cycle [OCT4OFF SOX2OFF ATAC-seq]

2019-11-26 | GSE134652 | GEO

Dynamic regulation of chromatin accessibility by pluripotency transcription factors across the cell cycle

Project description:Dynamic regulation of chromatin accessibility by pluripotency transcription factors across the cell cycle

| PRJNA556148 | ENA

Dynamics of chromatin accessibility and gene regulation by MADS-domain transcription factors in flower development

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-02-03 | E-GEOD-46987 | biostudies-arrayexpress

Dynamics of chromatin accessibility and gene regulation by MADS-domain transcription factors in flower development

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

2014-02-03 | GSE46987 | GEO

Dynamics of chromatin accessibility and gene regulation by MADS-domain transcription factors in flower development.

Project description:BACKGROUND: Development of eukaryotic organisms is controlled by transcription factors that trigger specific and global changes in gene expression programs. In plants, MADS-domain transcription factors act as master regulators of developmental switches and organ specification. However, the mechanisms by which these factors dynamically regulate the expression of their target genes at different developmental stages are still poorly understood. RESULTS: We characterized the relationship of chromatin accessibility, gene expression, and DNA binding of two MADS-domain proteins at different stages of Arabidopsis flower development. Dynamic changes in APETALA1 and SEPALLATA3 DNA binding correlated with changes in gene expression, and many of the target genes could be associated with the developmental stage in which they are transcriptionally controlled. We also observe dynamic changes in chromatin accessibility during flower development. Remarkably, DNA binding of APETALA1 and SEPALLATA3 is largely independent of the accessibility status of their binding regions and it can precede increases in DNA accessibility. These results suggest that APETALA1 and SEPALLATA3 may modulate chromatin accessibility, thereby facilitating access of other transcriptional regulators to their target genes. CONCLUSIONS: Our findings indicate that different homeotic factors regulate partly overlapping, yet also distinctive sets of target genes in a partly stage-specific fashion. By combining the information from DNA-binding and gene expression data, we are able to propose models of stage-specific regulatory interactions, thereby addressing dynamics of regulatory networks throughout flower development. Furthermore, MADS-domain TFs may regulate gene expression by alternative strategies, one of which is modulation of chromatin accessibility.

| S-EPMC4054849 | 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