GEO DataSets

Analysis of inflamed and un-inflamed colon epithelial biopsies of 67 ulcerative colitis (UC) patients from different anatomical locations of the gastrointestinal (GI) tract. Results provide insight into the regional variation of gene expression in UC patients and the pathogenesis of UC.

Organism:

Homo sapiens

Type:

Expression profiling by array, log2 ratio, 2 disease state, 2 other, 4 tissue sets

Platform:

GPL1708

Series:

GSE11223

202 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of colon epithelial biopsies from ulcerative colitis patients and healthy control donors. Study aims to survey and analyze variation from disease in different GI regions. Keywords: disease state analysis

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS3268

Platform:

GPL1708

202 Samples

Download data: TXT

(Submitter supplied) The aim of this study was to investigate differential intestinal gene expression in patients with Crohn's disease (CD) and controls. 172 biopsies from CD and control subjects were studied. Endoscopic biopsies were taken at ileocolonoscopy from five specific anatomical locations including the terminal ileum for RNA extraction.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL1708

172 Samples

Download data: TXT

(Submitter supplied) Samples for microarray analysis were derived from terminal ileum and colonic tissues from probands with Crohn´s disease and Ulcerative Colitis and control patients, respectively. IBD tissue biopsies from non-inflamed regions 10 cm distant from pathological areas were selected. To minimize inter-individual differences in gene expression and to enrich for IBD-specific transcriptional events, 2.5 µg of total RNA from terminal ileum and colon transversum from four individuals of each patient and control group were used for pooling. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Datasets:

GDS559 GDS560

Platforms:

GPL96 GPL97

12 Samples

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Investigation into inflammatory bowel disease gene expression. Terminal ileum and colon transversum biopsies from Crohn´s disease, ulcerative colitis and control patients examined.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 3 disease state, 2 tissue sets

Platform:

GPL97

Series:

GSE1152

6 Samples

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Investigation into inflammatory bowel disease gene expression. Terminal ileum and colon transversum biopsies from Crohn´s disease, ulcerative colitis and control patients examined.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 3 disease state, 2 tissue sets

Platform:

GPL96

Series:

GSE1152

6 Samples

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(Submitter supplied) Ulcerative colitis (UC) is a chronic inflammatory disease of the colon with preiods of active disease followed by remission. We performed a whole-genome transcriptional analysis of colonic biopsies from patients with histologically active and inactive UC, as well as non-inflammatory controls.

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS4365

Platform:

GPL570

43 Samples

Download data: CEL

Analysis of colonic biopsies from patients with histologically active or inactive UC and from healthy, non-inflammatory controls. UC is a chronic inflammatory disease with periods of active disease followed by remission. Results provide insight into molecular events associated with UC remission.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 5 agent, 4 disease state sets

Platform:

GPL570

Series:

GSE38713

43 Samples

Download data: CEL

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

Organism:

Homo sapiens; synthetic construct

Type:

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

Platforms:

GPL14613 GPL6244

48 Samples

Download data: CEL

(Submitter supplied) In this study, we investigated if miRNA expression in UC mucosa is altered and correlated our findings with mucosal mRNA expression. Integration of mRNA and miRNA expression profiling may allow the identification of functional links between dysregulated miRNAs and their predicted target mRNA.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6244

21 Samples

Download data: CEL

(Submitter supplied) In this study, we investigated if miRNA expression in UC mucosa is altered and correlated our findings with mucosal mRNA expression. Integration of mRNA and miRNA expression profiling may allow the identification of functional links between dysregulated miRNAs and their predicted target mRNA.

Organism:

Homo sapiens; synthetic construct

Type:

Non-coding RNA profiling by array

Platform:

GPL14613

27 Samples

Download data: CEL

(Submitter supplied) In this research, 90 differential expression mRNAs (DEMs), 72 differential expression lncRNAs (DELs) and biological functions and pathway were identified in ulcerative colitisby (UC) integrated analysis. Potential therapeutic target for treatment was preliminary verified by qRT-PCR experiment and bioinformatics analysis.

Organism:

Homo sapiens

Type:

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

Platform:

GPL20115

6 Samples

Download data: TXT

(Submitter supplied) Background & Aims: Genome-wide gene expression (GWGE) profiles of mucosal colonic biopsies have suggested the existence of a continuous inflammatory state in quiescent ulcerative colitis (UC). The aim of this study was to use DNA microarray-based GWGE profiling of mucosal colonic biopsies and isolated colonocytes from UC patients and controls in order to identify the cell types responsible for the continuous inflammatory state. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

56 Samples

Download data: CEL

(Submitter supplied) This study characterizes the inflammatory processes in left-sided colitis, pancolitis, and UC-associated dysplasia at the transcriptional level in colonics biopsies in order to identify potential biomarkers and transcripts of importance for the carcinogenic behaviour of chronic inflammation

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

60 Samples

Download data: CEL

(Submitter supplied) Background and Aims: Individuals with ulcerative colitis (UC) are at increased risk for colorectal cancer, although underlying mechanisms are incompletely understood. We sought to identify a potential gene expression signature in non-dysplastic distal mucosa that as a “genetic field effect” could be a marker for remote neoplastic lesions. Results: 468 genes were significantly up-regulated and 541 genes were significantly down-regulated >2-fold in UC patients with neoplasia compared to UC patients without neoplasia. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL13158

20 Samples

Download data: CEL

(Submitter supplied) RNA sequencing was performed on RNA isolated from baseline biopsies from UC patients enrolled in the Phase II EUCALYPTUS study of etrolizumab. Gene expression differences were identified in a subset of anti-TNF naïve patients that achieved clinical remission at 10 weeks in response to etrolizumab.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11154

73 Samples

Download data: TAB

(Submitter supplied) Experimental colitis is often used as a model for the inflammatory bowel diseases, ulcerative colitis and Crohn’s disease. Results identify the inflammatory processes during acute colitis in affected tissues from TNBS-treated susceptible 5-7 week old SJL mice. Keywords: Disease state analysis

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL2858

8 Samples

Download data: TXT

(Submitter supplied) The series was designed to identify new genes involved in the pathophysiology of inflammatory bowel disease (Crohn's disease and ulcerative colitis). This series represents a group of 31 samples, subdivided into 3 groups: 1) Normal controls: 11 samples; 2) patients with Crohn's diseases: 10 samples; 3) patients with ulcerative colitis: 10 samples. Each sample originated from a different patient or normal control, in total n=31 individuals were examined. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS1330

Platform:

GPL284

31 Samples

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Expression profiling of mucosal biopsy samples from sigmoid colons of 10 patients with Crohn disease (CD) and 10 patients with ulcerative colitis (UC). CD and UC are two forms of inflammatory bowel disease. Results provide insight into the pathogenesis of CD and UC.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 3 disease state sets

Platform:

GPL284

Series:

GSE1710

31 Samples

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(Submitter supplied) With aging, normal human tissues experience expansion of somatic clones that carry cancer mutations. However, whether such clonal expansion exists in the non-neoplastic intestine remains unknown. Here, from whole exome sequencing of 76 clonal human colon organoids, we identify a unique pattern of somatic mutagenesis in the inflamed epithelium of ulcerative colitis patients. The affected epithelium accumulates somatic mutations in multiple IL-17 signaling-related genes, including NFKBIZ, ZC3H12A, and PIGR, which are rarely identified in colon cancer. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL15207

16 Samples

Download data: CEL