Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Esophageal progenitor cell plasticity a 3D organotypic model of epithelial regeneration

ABSTRACT: Esophageal progenitor cell plasticity a 3D organotypic model of epithelial regeneration

PROVIDER: PRJNA685350 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR13255400.fastq.gz	Fastqsanger.gz
	SRR13255401.fastq.gz	Fastqsanger.gz
	SRR13255346.fastq.gz	Fastqsanger.gz
	SRR13255347.fastq.gz	Fastqsanger.gz
	SRR13255348.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 56

Similar Datasets

Esophageal progenitor cell plasticity; a 3D organotypic model of epithelial regeneration

Project description:Epithelial stem cells are capable of remarkable plasticity, facilitating efficient regenerative responses following damage. Here, we present a versatile model of ectopic niche regeneration that provides evidence of a switch in epithelial stem cell identity as a response to foreign microenvironmental signals. A combination of 3D organotypic cultures, 3D confocal imaging and Next-Generation Sequencing reveal events of epithelial plasticity during the reepithelialization of denuded stroma. In this study we perform a temporal analysis that provides new insights on the mechanisms driving cell fate flexibility in adult epithelial stem cells.

2023-12-14 | GSE163218 | GEO

Esophageal progenitor cell plasticity; a 3D organotypic model of epithelial regeneration [scATAC-seq]

Project description:Epithelial stem cells are capable of remarkable plasticity, facilitating efficient regenerative responses following damage. Here, we present a versatile model of ectopic niche regeneration that provides evidence of a switch in epithelial stem cell identity as a response to foreign microenvironmental signals. A combination of 3D organotypic cultures, 3D confocal imaging and Next-Generation Sequencing reveal events of epithelial plasticity during the reepithelialization of denuded stroma. In this study we provide new insights on the mechanisms driving cell fate flexibility in adult epithelial stem cells.

2025-10-02 | GSE303427 | GEO

Esophageal progenitor cell plasticity a 3D organotypic model of epithelial regeneration [scATAC-seq]

Project description:Esophageal progenitor cell plasticity a 3D organotypic model of epithelial regeneration [scATAC-seq]

| PRJNA1295391 | ENA

3D Bioprinted Endometrial Patch Enhances Regeneration and Fertility through Organotypic Endometrial Architecture

Project description:3D Bioprinted Endometrial Patch Enhances Regeneration and Fertility through Organotypic Endometrial Architecture

| PRJNA1330163 | ENA

Fibrogenic cell plasticity blunts tissue regeneration and aggravates muscular dystrophy

Project description:Preservation of cell identity is necessary for homeostasis of most adult tissues. This process is challenged every time a tissue undergoes regeneration after stress or injury. In the lethal Duchenne muscular Dystrophy (DMD), skeletal muscle regenerative capacity declines gradually as fibrosis increases. Using genetically engineered-tracing mice, we demonstrate that in dystrophic muscle, specialized cells of muscular, endothelial and hematopoietic origins gain plasticity towards a fibrogenic fate via a TGFβ-mediated pathway. This results in loss of cellular identity and normal function, with deleterious consequences for regeneration. Furthermore, this fibrogenic process involves acquisition of a mesenchymal progenitor multipotent status, illustrating a link between fibrogenesis and gain of progenitor cell functions. As this plasticity was also observed in DMD patients, we propose that mesenchymal transitions impair regeneration and worsen diseases with a fibrotic component. TGFb exposure induced gene expression was measured after 4 days of treatment compared to untreated cells. Three independent experiments were performed both for the treatment and for the control

2015-04-09 | E-GEOD-67687 | biostudies-arrayexpress

Periostin, a cell adhesion molecule, facilitates invasion in the tumor microenvironment and annotates a novel tumor invasive signature in esophageal cancer

Project description:Human squamous cell cancers are the most common epithelially derived malignancies. One example is esophageal squamous cell carcinoma (ESCC), which is associated with a high mortality rate that is related to a propensity for invasion and metastasis. We report that periostin, a highly expressed cell adhesion molecule, is a key component of a novel tumor invasive signature obtained from an organotypic culture model of engineered ESCC. This tumor invasive signature classifies with human ESCC microarrays, underscoring its utility in human cancer. Genetic modulation of periostin promotes tumor cell migration and invasion as revealed in gain of and loss of function experiments. Inhibition of EGFR signaling and restoration of wild-type p53 function were each found to attenuate periostin, suggesting interdependence of two common genetic alterations with periostin function. Our studies reveal periostin as an important mediator of ESCC tumor invasion and they indicate that organotypic (3D) culture can offer an important tool to discover novel biologic effectors in cancer. Invading and non-invading genetically engineered human esophageal cells with hTERT and EGFR overexpression and p53 mutations were grown in organotypic culture. These invading and non-invading cells were excised using laser-capture microdissection. RNA was isolated and amplified for Affymetrix U133 microarrays. Subsequent microarray analysis & comparison with 2 independent cohorts of primary ESCC tumors revealed upregulation of periostin as gene with highest upregulation found in novel tumor invasive signature in esophageal cancer.

2010-07-08 | E-GEOD-21293 | biostudies-arrayexpress

Proteomic workflows for deep phenotypic profiling of 3D organotypic liver models

Project description:Organotypic human tissue models constitute promising systems to facilitate drug discovery and development. They allow to maintain native cellular phenotypes and functions, which enables long-term pharmacokinetic and toxicity studies, as well as phenotypic screening. To trace relevant phenotypic changes back to specific targets or signaling pathways, comprehensive proteomic profiling is the gold-standard. A multitude of proteomic workflows have been applied on 3D tissue models to quantify their molecular phenotypes; however, their impact on analytical results and biological conclusions has not been evaluated. Here, we compared the performance of twelve mass spectrometry-based global proteomic workflows that differed in the amount of cellular input, lysis protocols and quantification methods for the analysis of primary human liver spheroids. We find that the different protocols differ majorly in the total number and subcellular compartment bias of identified proteins, which is particularly relevant for the reliable quantification of transporters and drug metabolizing enzymes. However, using a model of non-alcoholic fatty liver disease, we show that critical disease pathways are robustly identified using a standardized high throughput-compatible workflow based on thermal lysis, even using only individual spheroids (1,500 cells) as input. The results increase the applicability of proteomic profiling to phenotypic screens in organotypic microtissues and provides a scalable platform for deep phenotyping from limited biological material.

2024-04-29 | PXD047462 | Pride

Organotypic stromal cells impact endothelial cell transcriptome in 3D microvessel networks

Project description:Organotypic stromal cells impact endothelial cell transcriptome in 3D microvessel networks

| PRJNA849915 | ENA

3D Adipose Tissue Culture Links the Organotypic Microenvironment to Improved Adipogenesis

Project description:3D Adipose Tissue Culture Links the Organotypic Microenvironment to Improved Adipogenesis

| PRJNA774268 | ENA

Characterization of 3D-Organotypic Culture of Mouse Adipose-Derived Stem Cells

Project description:Characterization of 3D-Organotypic Culture of Mouse Adipose-Derived Stem Cells

| PRJNA1041470 | ENA