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E-MTAB-9850

ABSTRACT: Temporal transcriptomic changes during DSS colitis development and resolution.

DISEASE(S): Colitis,Normal

PROVIDER: E-MTAB-9850 | ExpressionAtlas | 2020-12-09

REPOSITORIES: ExpressionAtlas

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			Action	DRS
	E-MTAB-9850-analysis-methods.tsv	Tabular
	E-MTAB-9850-analytics.tsv	Tabular
	E-MTAB-9850-apply_fixes_zooma_mappings.done	Other
	E-MTAB-9850-atlasExperimentSummary.Rdata	Rdata
	E-MTAB-9850-configuration.xml	Xml

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Temporal transcriptomic changes during DSS colitis development and resolution.

Project description:Temporal transcriptomic changes during DSS colitis development and resolution.

| PRJEB41685 | ENA

Expression data from mouse colon tissue response to DSS induction at day 0, 2, 4 and 6

Project description:Temporal genome profiling of DSS colitis The DSS induced mouse colitis model is often used to emulate Ulcerative Colitis (UC) in order understand pathophysiological mechanism of inflammatory bowel disease (IBD). Given the progressive nature of IBD, colon tissue gene expression changes during the evolution of disease, and knowing the changes in gene expression profiles could indentify potential diagnostic markers or additional therapeutic targets for colitis. Therefore, we performed temporal genome expression profiling analysis using the Affymetrix genome wide microarray system to identify broad scale changes in gene expression associated with the development of colitis. Keywords: Expression time course of mouse colon tissue induced by 3% DSS. C57BL/6J mice were given 3% DSS in the drinking water and tissues from individual cohorts were collected at days 0, 2, 4 and 6. Total RNA were extracted from the colon tissue and detected by Affymerix GeneChip Mouse Genome 430 2.0 Array.

2010-10-13 | E-GEOD-22307 | biostudies-arrayexpress

Expression data from mouse colon tissue response to DSS induction at day 0, 2, 4 and 6

2010-10-13 | GSE22307 | GEO

Temporal transcriptional profiles of colonic tissue during DSS-induce colitis

Project description:Inflammation dramatically alters the gut microenvironment. To investigate the transcriptome changes the temporal profile of multiple signaling pathways throughout the progression of colitis, we collected the colonic tissue at a series of time points during DSS colitis for bulk RNA sequencing.

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Temporal transcriptomic changes during DSS colitis development and resolution.

Project description:RNA-seq from colon tissues of mice treated with 3%DSS at various stages of colitis development and resolution.

2021-02-11 | E-MTAB-9850 | biostudies-arrayexpress

Apple peel polyphenolic content as a key player for the prevention and treatment of experimental inflammatory bowel disease.

Project description:Colonic gene expression profiles of mice with DSS-induced colitis treated with apple peel polyphenolic extract Four-condition experiment: control, DSS-induced colitis, and mice treated with DAPP (two different doses (200 and 400 mg/kg/day) before or during induction and development of DSS-induced colitis.

2016-12-06 | GSE71920 | GEO

Identification of a Choroid Plexus Vascular Barrier Closing during Intestinal Inflammation to Protect the Brain [scRNA-Seq]

Project description:Profiles of the cellular components of the CP at single cell resolution (via 10X scRNA-seq) during the preclinical murine model of DSS ulcerative colitis

2021-10-26 | GSE178749 | GEO

RNA-Seq from the colon tissues of DSS treated mice receiving either EP4-D, a selective E-type prostanoid receptor 4 agonist or vehicle

Project description:The experiment was designed to identify transcriptomic changes induced by selective EP4 agonism during experimental colitis. The mice received 1mg/ kg of the selective EP4 agonist, EP4-D or sterile phosphate buffered saline as vehicle control orally once per day concomitant with 3% DSS in drinking water. The DSS treatment was stopped on day 5 and mice were provided access to autoclaved drinking water for 3 additional days along with agonist and vehicle treatments once daily as described above. At the end of the treatment period, colon tissues from the mice were harvested, RNA isolated, and sequenced to identify transcriptional changes.

2021-02-01 | E-MTAB-9820 | biostudies-arrayexpress

Anatabine ameliorates intestinal inflammation and reduces the production of pro-inflammatory factors in a dextran sulfate sodium mouse model of colitis.

Project description:Objective: In this study, we aimed to evaluate the anti-inflammatory properties of nicotine and anatabine in a dextran sulfate sodium (DSS) mouse model of ulcerative colitis (UC). Methods: C57BL/6 male mice (10 groups with 8 animals each) were orally administered nicotine at a concentration of 5 or 20 mg/kg body weight or anatabine at a concentration of 5 or 20 mg/kg body weight for a total of 21 days. Colitis was induced by oral administration of 3.5% DSS in drinking water ad libitum during days 14–21. Colonic samples were collected for transcriptomic analysis and multi-analyte profiling (MAP). Results: Oral administration of anatabine, but not nicotine, reduced the clinical symptoms of DSS-induced colitis. The result of gene expression analysis suggested that anatabine had a restorative effect on global DSS-induced gene expression profiles, while nicotine only had limited effects. Accordingly, MAP findings revealed that anatabine reduced the colonic abundance of DSS-associated cytokines and increased IL‑10 abundance. Conclusions: Our results support the reduction of inflammatory effects by anatabine in the DSS mouse model of UC.

2020-11-03 | E-MTAB-8543 | biostudies-arrayexpress

Altered epigenetic programming links intestinal inflammation to colon cancer (Bisulfite-seq)

Project description:This study uses whole-genome bisulfite sequencing to characterize the methylomes of the AOM/DSS mouse model at single-base resolution. In this model, mice are treated with dextran sodium sulfate (DSS) to induce colitis. When this treatment is preceded by injections of the weak carcinogen azoxymethane (AOM) the mice develop intestinal tumors. Our results identify hypermethylated DMVs as a prominent feature of the colitis methylome that is conserved in intestinal adenocarcinomas. Further analyses reveal a subset of DMV-associated genes, expressed in normal intestinal epithelial cells, that were silenced and hypermethylated in inflamed and cancerous intestinal cells. Together, these findings provide strong support for the hypothesis that inflammatory signals induce a higher risk for cancer development by manipulating the epigenome. . Whole genome methylation analysis of M. musculus. Three conditions were sequenced analyzed, the first is an untreated control, the second corresponds to inflammation, the third to cancer induced by inflammation. All three conditions were analyzed using three replicates.

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