GEO DataSets

Analysis of whole colon tissue two weeks after C. rodentium infection of IL-10-deficient C57BL/6 females. C. rodentium is a mucosal pathogen that colonizes the colon causing transient mucosal inflammation. Results provide insight into the role of IL-10 in the colonic response to infection.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 2 genotype/variation, 2 infection sets

Platform:

GPL7202

Series:

GSE55812

4 Samples

Download data: TXT

(Submitter supplied) To further understand immune mechanims involved in regulating intestinal inflammation, we employed whole genome microarray expression profiling as a discovery platform to identify genes with the potential of regulating inflammation in the absence of IL-10. Whole colon tissue from IL-10-deficient and C57BL/6 (wild-type) mice was collected 2 weeks after Citrobacter rodentium infection and from uninfected controls. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS5629

Platform:

GPL7202

4 Samples

Download data: TXT

(Submitter supplied) Profiling of a total of 34,790 genes revealed a wide range of expression changes during the course of C. rodentium infection in murine colon. The majority of changes were observed during weeks 1 and 2, while relatively fewer changes were seen at week 3. Interestingly, chemokines made up 20% of the top twenty upregulated genes.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL2897

4 Samples

Download data: XLS

(Submitter supplied) Infection by attaching and effacing (A/E) pathogens poses a serious threat to public health, as was highlighted by the recent outbreak of E. coli O157:H7 infection in the United States. Here, by using a murine A/E pathogen, Citrobacter rodentium, we demonstrate that C. rodentium infection is lethal to IL-22-/- mice within two weeks. IL-22, in the early phase of infection, is indispensable for preventing the invasion of bacteria through the intestinal epithelium, and thereby preventing systemic spread and mortality. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS3226

Platform:

GPL2872

6 Samples

Download data: TXT

Analysis of C57BL/6 colon cultures treated with 10 ng/ml of interleukin-22 (IL-22) for 24 hours. IL-22, a member of the IL-10 family of cytokines, can induce a marked antimicrobial response in vitro. Results provide insight into the molecular basis of IL-22 induced host defense mechanisms.

Organism:

Mus musculus

Type:

Expression profiling by array, log10 ratio, 2 agent sets

Platform:

GPL2872

Series:

GSE10010

6 Samples

Download data: TXT

(Submitter supplied) We performed deep RNA sequencing and systematically analyzed the global gene expression profiles of C. rodentium-infected colon tissues from both susceptible and resistant congenic mice strains to determine the common transcriptomic responses to infection and the Rspo2-mediated dysregulated pathway signatures associated with the loss of disease tolerance.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13112

12 Samples

Download data: TXT

(Submitter supplied) IL-22 acts on epithelial cells and has been shown to induce tissue protective and wound healing responses in these cells. But it has recently been decribed that IL-22 exacerbates ileatis after infection with T. gondii. The goal of the study is to identify the IL-22-dependent genes during T. gondii infection in order to understand why IL-22 is pathogenic in this context.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

10 Samples

Download data: CEL

(Submitter supplied) miR-34a is a known tumor suppressor that targets cell proliferation and apoptosis genes. In this study, we have shown that miR-34a acts as a safeguard for the inflammatory stem cell niche and reparative regeneration by modulating both the immune and epithelial responses to infection and inflammation. We isolated CD4+ T cells and colon epithelial cells from miR-34a-/- and wildtype mice revealed various changes in gene expression.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21103

12 Samples

Download data: TXT

(Submitter supplied) This is to determine the regulation of gene expression in different T Cell population with short chain fatty acids. This will provide the roles of SCFAs in regulation of adaptive immunity and T-cell-mediated inflammation.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

14 Samples

Download data: CEL, CHP

(Submitter supplied) We report analysis of colonic transcriptome in gut epithelial cells specific deficient mouse (Il17ra villin cre +) and littermate control mouse (Il17ra villin cre -) infected with Citrobater rodentium (C. rodentium) for 10 days. We found RNA-seq data show Nox family genes and defensin genes are downregulated in Il17ra villin cre + mice. It is interestingly Tnfsf13 was also downregulated in Il17ra villin cre + mice. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21626

6 Samples

Download data: TXT

(Submitter supplied) We unveiled the disease relevance of the C. rodentium induced colitis model to IBD and demonstrated the protective role of the mucosal healing therapy IL-22.Fc in ameliorating the epithelial dysfunction

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21626

5 Samples

Download data: H5, MTX, TSV

(Submitter supplied) Three subsets of intestinal epithelial cells (IECs) (P9, Surface; P10, Large Crypt; P11, Small Crypt) were isolated from Naïve and Day 9 C.r.-infected Cntrl (Cre-) and CD4 cre+. Il22 floxed mice (CD4 cKO)

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17021

33 Samples

Download data: TXT

(Submitter supplied) Introduction: We reported that caspase-1 is highly expressed in in vitro-primed C.rodentium-specific Th cells. Caspase-1 deficient (Casp1d10) naïve T cells differentiate into pathogen-specific Th17 cells at an suboptimal level and fail to protect against C.rodentium infection. To gain insight into the regulatory pathways exerted by caspase-1 in Th cells, we performed RNA-seq on in vitro-primed WT and Casp1d10 Th cells. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

4 Samples

Download data: TXT

(Submitter supplied) Introduction: We reported a in vitro pathogen-specific priming system to using pathogen lysate stimulated splenic CD11c+ DCs to differentiate pathogen-specific murine T helper cells. This method allowed us to compare side-by-side transcriptional profiles of bulk T helper cells that are specific to distinct pathogens and to study their composition and functionality. Moreover, we can utilize cytokine reporter mice to isolate specific Th subtypes from these in vitro-primed T cells and study their transcriptional regulation. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

10 Samples

Download data: TXT

(Submitter supplied) Introduction: We reported a in vitro pathogen-specific priming system to using pathogen lysate stimulated splenic CD11c+ DCs to differentiate pathogen-specific murine T helper cells. This method allowed us to compare side-by-side transcriptional profiles of bulk T helper cells that are specific to distinct pathogens and to study their composition and functionality. Method: We stimulated mouse splenic CD11c+ DCs with 10ug/ml Lm or Cr lysate for 5hours. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

6 Samples

Download data: XLSX

(Submitter supplied) Mice with and without IFNAR expression were treated with broad-spectrum antibiotics for more than 10 days, either infected with MNV or left uninfected and then treated with 3% DSS in drinking water for 6 days. Intestinal epithelial cells were isolated from the colon and sorted and RNA extracted for RNASeq analysis. We found that mice with IFNAR expression on IEC and infected with MNV had a gene expression signature of DNA repair similar that induced by IL-22 signaling.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21103

12 Samples

Download data: XLSX

(Submitter supplied) Overall hypothesis: RNAseq can be used to examine and compare the vitamin A (VA) effect, Infection effect caused by Citrobacter rodentium (C. rodentium), and the Interaction effect (VA status × C. rodentium infection) in mouse small intestine (SI) and colon, on the scale of global transcriptome. Methods: Vitamin A deficient (VAD) mice were generated by feeding VAD diet to the pregnant C57/BL6 dams and their post-weaning offspring. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17021

28 Samples

Download data: TXT

(Submitter supplied) We aim to determine if mice in our mouse colony had similar of different microbiomes. To do this, we perfromed 16S sequencing of stool from unifected mice of the gentotypes listed below. We also looked at how infection causes dysbiosis of the mircobiome, measuring 16S sequencing over a C.rodentium infection timecourse.

Organism:

Mus musculus

Type:

Other

Platform:

GPL16417

153 Samples

Download data: TXT

(Submitter supplied) Transcriptional profile of monocytes in the colon in response to C. rodentium infection

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17021

8 Samples

Download data: XLSX

(Submitter supplied) scRNAseq of in vitro polarized Th17 and Th22 cells (Gpr65_WT versus KO), to compare metabolism gene expression in Gpr65_WT versus KO.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

8 Samples

Download data: MTX, TSV