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E-GEOD-58351

ABSTRACT: Gene expression in intestinal stem cells

OTHER RELATED OMICS DATASETS IN: PRJNA252363

PROVIDER: E-GEOD-58351 | ExpressionAtlas | 2014-07-30

REPOSITORIES: ExpressionAtlas

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			Action	DRS
	E-GEOD-58351-analysis-methods.tsv	Tabular
	E-GEOD-58351-atlasExperimentSummary.Rdata	Rdata
	E-GEOD-58351-configuration.xml	Xml
	E-GEOD-58351-percentile-ranks.tsv	Tabular
	E-GEOD-58351.condensed-sdrf.tsv	Tabular

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Integrative multi-omics analysis of intestinal organoid differentiation

Project description:Intestinal organoids accurately recapitulate epithelial homeostasis in vivo, thereby representing a powerful in vitro system to investigate lineage specification and cellular differentiation. Here, we applied a multi-omics framework on stem cell enriched and -depleted mouse intestinal organoids to obtain a holistic view of the molecular mechanisms that drive differential gene expression during adult intestinal stem cell differentiation. Our data revealed a global rewiring of the transcriptome and proteome between intestinal stem cells and enterocytes, with the majority of dynamic protein expression being transcription-driven. Integrating absolute mRNA and protein copy numbers revealed post-transcriptional regulation of gene expression. Probing the epigenetic landscape identified a large number of cell-type specific regulatory elements, which revealed Hnf4g as a major driver of enterocyte differentiation. In summary, by applying an integrative systems biology approach we uncovered multiple layers of gene expression regulation, which contribute to lineage specification and plasticity of the mouse small intestinal epithelium.

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