Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Reconstructing divergent retinoid-induced cell fate-regulatory programs in stem cells

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

ORGANISM(S): Mus musculus

PROVIDER: GSE68291 | GEO | 2016/09/15

SECONDARY ACCESSION(S): PRJNA283037

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Reconstructing divergent retinoid-induced cell fate-regulatory programs in stem cells [Affymetrix]

Project description:We have integrated dynamic RXRa binding, chromatin accessibility and promoter epigenetic status with the transcriptional activity inferred from RNA polymerase II mapping and transcription profiling. This demonstrated a temporal organization structure, in which early events are preferentially enriched for common GRNs, while cell fate specification is reflected by the activation of late programs in a cell-type specific manner. Furthermore, significant differences in cell lines' promoter status of genes associated with cell-line specific programs were inferred. Finally, a variety of transcription factors (TFs) playing a direct role in the signal transduction cascade downstream of the RXR/RAR initiated wiring were identified, several of them commonly regulated in both model systems, but in addition cell-type specific TF drivers were also identified.

2016-09-15 | GSE68290 | GEO

Reconstructing divergent retinoid-induced cell fate-regulatory programs in stem cells [ChIP-Seq]

2016-09-15 | GSE68540 | GEO

Reconstructing divergent retinoid-induced cell fate-regulatory programs in stem cells

Project description:Reconstructing divergent retinoid-induced cell fate-regulatory programs in stem cells

| PRJNA283037 | ENA

Reconstructing gene regulatory networks of tumorigenesis

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

2016-05-13 | E-GEOD-72533 | biostudies-arrayexpress

Reconstructing gene regulatory networks of tumorigenesis

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

2016-05-13 | GSE72533 | GEO

An Integrated Approach to Reconstructing Genome-scale Transcriptional Regulatory Networks

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

2014-06-19 | E-GEOD-58658 | biostudies-arrayexpress

Loss of Apc impairs Lgr5+ intestinal stem cell fate programs

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

2020-03-22 | GSE123006 | GEO

Dissecting the retinoid-induced differentiation of F9 embryonal stem cells by integrative genomics

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

2011-10-11 | GSE30539 | GEO

Reconstructed cell fate-regulatory programs in stem cells reveal hierarchies and key factors of neurogenesis.

Project description:Cell lineages, which shape the body architecture and specify cell functions, derive from the integration of a plethora of cell intrinsic and extrinsic signals. These signals trigger a multiplicity of decisions at several levels to modulate the activity of dynamic gene regulatory networks (GRNs), which ensure both general and cell-specific functions within a given lineage, thereby establishing cell fates. Significant knowledge about these events and the involved key drivers comes from homogeneous cell differentiation models. Even a single chemical trigger, such as the morphogen all-trans retinoic acid (RA), can induce the complex network of gene-regulatory decisions that matures a stem/precursor cell to a particular step within a given lineage. Here we have dissected the GRNs involved in the RA-induced neuronal or endodermal cell fate specification by integrating dynamic RXRA binding, chromatin accessibility, epigenetic promoter epigenetic status, and the transcriptional activity inferred from RNA polymerase II mapping and transcription profiling. Our data reveal how RA induces a network of transcription factors (TFs), which direct the temporal organization of cognate GRNs, thereby driving neuronal/endodermal cell fate specification. Modeling signal transduction propagation using the reconstructed GRNs indicated critical TFs for neuronal cell fate specification, which were confirmed by CRISPR/Cas9-mediated genome editing. Overall, this study demonstrates that a systems view of cell fate specification combined with computational signal transduction models provides the necessary insight in cellular plasticity for cell fate engineering. The present integrated approach can be used to monitor the in vitro capacity of (engineered) cells/tissues to establish cell lineages for regenerative medicine.

| S-EPMC5088593 | biostudies-literature

An Integrated Approach to Reconstructing Genome-scale Transcriptional Regulatory Networks

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

2014-06-19 | GSE58658 | GEO