GEO DataSets

(Submitter supplied) The lack of suitable animal models reflecting chronically relapsing inflammation and tissue remodeling have hindered fibrosis research in inflammatory bowel diseases (IBD). This study investigated changes in connective tissue in a chronic murine model using different cycles of dextran sodium sulphate (DSS) to mimic the relapsing nature of the disease. We used whole gene expression arrays to study differences in colonic gene expression levels between acute and more chronic DSS colitis,

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6246

30 Samples

Download data: CEL

(Submitter supplied) Increased levels of tissue inhibitor of metalloproteinase-1 (TIMP-1) have been detected in fibrotic strictures in Crohn’s disease. In a murine model of chronic inflammation, fibrosis was associated with an increase in TIMP-1 and inhibition of matrix metalloproteinase (MMP)-mediated degradation. We investigated the effect of TIMP-1 deficiency on the colonic gene expression in acute and chronic murine models of colitis, using whole genome gene expression arrays.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6246

37 Samples

Download data: CEL

(Submitter supplied) 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. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS3859

Platform:

GPL1261

23 Samples

Download data: CEL, CHP

Analysis of colon from C57BL/6J 12-14wk-olds treated with DSS for up to 6 days. DSS model emulates clinical and histopathological features of ulcerative colitis (UC), a type of Inflammatory Bowel Disease (IBD). Results provide insight into molecular mechanisms underlying development of DSS colitis.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 2 agent, 2 disease state, 4 time sets

Platform:

GPL1261

Series:

GSE22307

23 Samples

Download data: CEL, CHP

(Submitter supplied) L-Arginine (L-Arg) is the substrate for both inducible nitric oxide synthase and arginase, which are upregulated in human IBD and in mouse colitis models. We have found that L-Arg supplementation enhances wound restitution in vitro, and improves the clinical parameters of weight loss, survival, and colon weight/length, in dextran sulfate sodium (DSS) induced murine colitis. Our aim was to further identify the potential mechanisms underlying the clinical benefit of L-Arg supplementation.

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS4368

Platform:

GPL6246

12 Samples

Download data: CEL

Analysis of colon from dextran sulfate sodium (DSS)-treated C57BL/6 males following L-arginine supplementation. L-Arg supplementation improves clinical parameters of DSS-induced colitis. Results provide insight into molecular mechanisms underlying the clinical benefit of L-Arg supplementation.

Organism:

Mus musculus

Type:

Expression profiling by array, transformed count, 2 agent, 2 disease state sets

Platform:

GPL6246

Series:

GSE34874

12 Samples

Download data: CEL

(Submitter supplied) Serious complications of Crohn’s disease (CD), a form of Inflammatory Bowel Disease (IBD), involve the formation of intestinal fibrotic stenosis followed by obstruction. Chronic inflammatory state activates resident fibroblasts and myofibroblasts, that are the key effector cells in fibrosis, being responsible for the synthesis of ECM proteins. Exposure of human colon fibroblasts (CCD18-Co) to the pro-fibrotic cytokine TGF-β1 is sufficient to induce the expression of genes associated with myofibroblast features such as cell migration, ECM remodeling and contraction. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21697

12 Samples

Download data: TXT

(Submitter supplied) Study hypothesized that oral supplementation of methylthioadenosine (MTA) would reduce the inflammatory response in mice exposed to an agent that induces colitis (DSS) and that this reduction in inflammatory response would lead to reduced clinical disease burden.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6885

16 Samples

Download data: TXT

(Submitter supplied) Background: It has been found that miR-21 is increased in colonic tissues and decreased in peripheral blood regulatory T cells (Tregs) of patients with ulcerative colitis (UC). We aimed to investigate the influence of miR-21 on Tregs function in intestinal inflammation. Methods: Various CD4+ T cell populations were flow-cytometry sorted from miR-21-/- mice and littermates (WT) utilization in T-cell transfer colitis model and suppression of T cell activation and proliferation by Tregs. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6885

8 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens; Murid gammaherpesvirus 4; Betapolyomavirus hominis; Rattus norvegicus; Murid betaherpesvirus 1; JC polyomavirus; human gammaherpesvirus 4; Human gammaherpesvirus 8; Betapolyomavirus macacae; Mus musculus; Human alphaherpesvirus 1; Human betaherpesvirus 5; Human immunodeficiency virus 1

Type:

Expression profiling by array; Non-coding RNA profiling by array

Platforms:

GPL6885 GPL7723

26 Samples

Download data

(Submitter supplied) Background: MicroRNAs (miRNAs) acting as negative regulators of gene expression are differentially expressed in intestinal tissues of patients with inflammatory bowel disease (IBD). Assessing the functional role of miRNAs in murine models of colitis facilitates elucidating the role of specific miRNAs in human IBD. The aim of this study was to determine the miRNA signature of murine models of colitis and to assess the influence of miR-21 on intestinal inflammation. more...

Organism:

Rattus norvegicus; Homo sapiens; Murid gammaherpesvirus 4; Betapolyomavirus hominis; human gammaherpesvirus 4; JC polyomavirus; Human gammaherpesvirus 8; Betapolyomavirus macacae; Mus musculus; Human alphaherpesvirus 1; Human betaherpesvirus 5; Murid betaherpesvirus 1; Human immunodeficiency virus 1

Type:

Non-coding RNA profiling by array

Platform:

GPL7723

8 Samples

Download data: TXT

(Submitter supplied) Background: MicroRNAs (miRNAs) acting as negative regulators of gene expression are differentially expressed in intestinal tissues of patients with inflammatory bowel disease (IBD). Assessing the functional role of miRNAs in murine models of colitis facilitates elucidating the role of specific miRNAs in human IBD. The aim of this study was to determine the miRNA signature of murine models of colitis and to assess the influence of miR-21 on intestinal inflammation. more...

Organism:

Murid gammaherpesvirus 4; Betapolyomavirus hominis; Rattus norvegicus; human gammaherpesvirus 4; JC polyomavirus; Human gammaherpesvirus 8; Betapolyomavirus macacae; Homo sapiens; Mus musculus; Human alphaherpesvirus 1; Human betaherpesvirus 5; Murid betaherpesvirus 1; Human immunodeficiency virus 1

Type:

Non-coding RNA profiling by array

Platform:

GPL7723

12 Samples

Download data: TXT

(Submitter supplied) Background: MicroRNAs (miRNAs) acting as negative regulators of gene expression are differentially expressed in intestinal tissues of patients with inflammatory bowel disease (IBD). Assessing the functional role of miRNAs in murine models of colitis facilitates elucidating the role of specific miRNAs in human IBD. The aim of this study was to determine the miRNA signature of murine models of colitis and to assess the influence of miR-21 on intestinal inflammation. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6885

6 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Bacteroides thetaiotaomicron VPI-5482; Mus musculus

Type:

Expression profiling by array

Platforms:

GPL25450 GPL7440

18 Samples

Download data: CEL, TXT

(Submitter supplied) Analysis of the Bacteroides thetaiotaomicron(BT) transcriptome during co-culture with Caco-2 intestinal epithelial cells To identify potential bacterial protein(s) involved in the anti-inflammatory effect of BT in colitis, BT was incubated with Caco-2 human intestinal epithelial cells for 2 hours, and bacterial gene expression was assessed on a Bacteroides thetaiotaomicron VPI-5482 specific microarray. more...

Organism:

Bacteroides thetaiotaomicron VPI-5482

Type:

Expression profiling by array

Platform:

GPL25450

10 Samples

Download data: TXT

(Submitter supplied) Analysis of the gut transcriptome as affected by treatment with Bacteroides thetaiotaomicron in a mouse model of IBD Here, we report analysis of the gut transcriptome in IL10KO mice after treatment with Bacteroides thetaiotaomicron (BT). Comparative transcriptome analysis of ascending colon tissue of IL10KO and IL10KO/BT-treated mice showed differential expression of a wide range of genes associated with inflammatory responses between the two treatment groups. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL7440

8 Samples

Download data: CEL

(Submitter supplied) We investigated the relationship between chronic inflammation and fibrosis in a mouse model of chronic colitis. Six weekly Trinitrobenzenesulphonic acid (TNBS) enemas were given to establish colitis and temporal changes in gene expression was elucidated over the next six weeks. Keywords: disease state analysis

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL81

7 Samples

Download data

(Submitter supplied) We implemented a murine model of intestinal inflammation based on oral administration of multiple cycles of low dose dextran sulfate sodium (DSS) to induce epithelial injury and ECM deposition. Mice were subjected to 3 repetitive cycles of DSS displayed progressive accumulation of immune cell infiltrates associated with excessive deposition of collagen fibers. Lamina propria cells from water-fed and DSS-fed mice were isolated using enzymatic digestion, and enriched for stromal cells by FACS using antibodies excluding hematopoietic cells (CD45), epithelial cells (EpCAM), and erythrocytes. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17021

12 Samples

Download data: MTX, TSV

(Submitter supplied) We characterized the transcriptional landscape of acute and chronic models of dextran sodium sulfate (DSS) and adoptive transfer (AT) colitis murine models to derive novel temporal gene expression and splicing signatures in blood and colonic tissue in order to capture dynamics of colitis remission and relapse. We show that colitis induces robust expression of minor isoforms and using machine learning, demonstrate that specific temporal gene expression and splicing signatures are highly predictive of tissue histopathology spanning blood and colonic tissue as well as various experimental sites and protocols. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13112

403 Samples

Download data: CSV