Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptomics of mouse ileal stem cell-derived epithelium grown on transwells

ABSTRACT: Transcriptomics of mouse ileal stem cell-derived epithelium grown on transwells

PROVIDER: PRJNA513853 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR8418160.fastq.gz	Fastqsanger.gz
	SRR8418170.fastq.gz	Fastqsanger.gz
	SRR8418161.fastq.gz	Fastqsanger.gz
	SRR8418162.fastq.gz	Fastqsanger.gz
	SRR8418163.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 15

Similar Datasets

Transcriptomics of mouse ileal stem cell-derived epithelium grown on transwells

Project description:Purpose: The goal of this study was to identify transcriptional changes that occur in mouse ileal stem cell-derived epithelium plated on transwells after the establishment of an air-liquid interface (ALI). Methods: Mouse ileal stem cell spheroids were plated on transwells and grown in L-WRN conditioned medium (top and bottom compartment) for 7 days, at which point the top medium was removed to establish ALI. Samples were collected for sequencing on the day of ALI initiation (non-ALI Day 0) and three days post top medium removal (ALI Day 3). Control samples were also collected from transwells submerged for all 10 days of the experiment (non-ALI Day 3) and from the initial stem cell spheroid cultures. Results: Non-ALI Day 0 and non-ALI Day 3 samples had similar transcriptional profiles, whereas ALI transwells showed upregulation of transcriptional factors that induce secretory cell lineages, as well as a general upregulation of metabolic genes involved in oxidative phosphorylation and downregulation of those involved in glycolysis. Conclusions: Removal of L-WRN conditioned medium from the top compartment of transwells plated with stem cell-derived intestinal epithelial cells establishes an air-liquid interface that changes the metabolic profile of the cultures and initiates a differentiation cascade for intestinal secretory cells such as goblet cells and paneth cells.

2019-07-29 | GSE124815 | GEO

Gene expression in the mouse adult small intestinal epithelium

Project description:Gene expression was compared between adult wildtype (WT) CD1 jejunual epithelium (J) and ileal epithleium (I). Gene expression was compared between adult control ileal epithleium and Gata4 conditional knockin (cKI) ileal epithelium. Gene expression was compared between adult wildtype CD1 jejunum and Gata4 conditional knockout (cKO) jejunal epithelium.

2017-03-01 | GSE75870 | GEO

Transcription profiling of human ileal epithilium in patients suffering from Crohn's disease

Project description:Identification of significant regulated genes of the ileal epithelium in patients suffering from Crohn disease (normal vs. activ and non activ CD).

2009-02-27 | E-MEXP-1225 | biostudies-arrayexpress

Fibrosis associated changes detected in the proteome of surface epithelium overlying Crohn’s Disease Strictures

Project description:Background and aims: Intestinal fibrosis is a common complication of Crohn’s disease (CD). It is characterised by an excessive accumulation of fibroblasts differentiating into activated myofibroblasts secreting excessive extracellular matrix. The potential role of the intestinal epithelium in this fibrotic process remains poorly defined. Methods: A total of 113 CD and control subjects were studied. We performed a pilot proteomic study comparing the proteome of surface epithelium isolated by laser capture microdissection in normal and fibrotic zones of resected ileal CD strictures (n=5). Selected proteins were validated by immunohistochemistry (IHC) in colonic and ileal samples of stricturing CD patients (n=44), pure inflammatory CD (n=29) and control subjects (n=40). Functional assays with cell lines cultures and a fibroblast to myofibroblast differentiation model were used to assess the role of the highlighted epithelial proteins in CD fibrosis. Results: Proteomic study revealed an endoplasmic reticulum (ER) stress and unfolded protein response (UPR) markers increase in the epithelium overlying ileal fibrotic strictures, involving Anterior gradient protein 2 homolog (AGR2) and Binding immunoglobulin protein (BiP). This was confirmed by IHC. The ER stress induction in intestinal epithelial cells increased AGR2 as well as BiP expression and led to an extracellular secreted AGR2. A fibroblast to myofibroblast differentiation was obtained with the supernatant of intestinal epithelial cells pre-conditioned by ER stress and with recombinant AGR2. Conclusions: AGR2 and other ER stress markers are increased within the intestinal epithelium overlying fibrotic strictures and might contribute to profibrotic signals involved in CD fibrosis.

2022-04-04 | PXD022214 | Pride

Bacterial ADP-Heptose triggers stem cell regeneration in the intestinal epithelium following injury [scRNA-seq]

Project description:ADP-Heptose (ADP-Hep), a metabolite produced by Gram-negative bacteria as an intermediate of lipopolysaccharide biosynthesis, is detected in the host cytosol by the kinase ALPK1, which engages TIFA-dependent innate immune responses. However, the functional role of the ALPK1-TIFA pathway in the intestinal epithelium remains poorly understood. Here, we use bulk RNA sequencing of murine derived ileal organoids to study the role of ADP-Hep in initiating stem cell regeneration in the intestinal epithelium.

2025-08-18 | GSE297524 | GEO

Bacterial ADP-Heptose triggers stem cell regeneration in the intestinal epithelium following injury [RNA-seq]

2025-08-18 | GSE297523 | GEO

RNA-Seq Analysis of Dose-Dependent TCDD-Elicited Ileal Gene Expression in Male Mice

Project description:Dose-dependent ileal gene expression was examined following repeated exposure (every 4 days for 28 days) to 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD). These data were used to examine the effect of repeated TCDD exposure on gene expression in the intestinal epithelium of C57BL/6 male mice.

2021-12-31 | GSE171942 | GEO

RNA-Seq Analysis of Dose-Dependent TCDD-Elicited Ileal Gene Expression in Male Mice

2017-02-28 | GSE89430 | GEO

Epithelium-only cultured stem cells isolated from human pluripotent stem cell derived intestinal organoids grown in matrigel and alginate

Project description:Epithelium-only cultured stem cells isolated from human pluripotent stem cell derived intestinal organoids grown in matrigel and alginate

| PRJEB27812 | ENA

ileal microbiota

Project description:ileal microbiota Raw sequence reads

| PRJNA904838 | ENA