GEO DataSets

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) 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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(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) The series was designed to obtain gene expression patterns of TNF-alpha stimulated CaCo-2 cells. Keywords: TNF-alpha stimulation

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL284

33 Samples

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(Submitter supplied) The series was designed to obtain gene expression patterns of TNF-alpha stimulated THP-1 cells. Keywords: TNF-alpha stimulation

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL284

15 Samples

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(Submitter supplied) We had previously demonstrated an increased proapoptotic effect of Imatinib (STI571) in combination with Amifostine (AMI) in K562 cell line. In this study we used genomic scale gene expression profiling to monitor changes at transcriptional level in K562 cells during the treatment with AMI+STI571. We identified a transcriptional repressor of survival genes, known as BTF, which triggers a pro-apoptotic signal, potentially helpful to overcome the resistance to STI571. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL2829

4 Samples

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(Submitter supplied) The purpose of our study was to better understand the genetic mechanism of oncogenesis for human colorectal cancer and to identify potential new tumour markers of use in clinical practice. Results: Comparing cancerous tissues with normal colonic mucosa we identified 584 known genes (3%) differentially expressed to a significant degree (p<0.001). Many of the transcripts that were more abundant in tumours than in non-neoplastic tissues appear to reflect important events for colon carcinogenesis. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL2829

24 Samples

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(Submitter supplied) Ulcerative colitis (UC) and Crohn’s disease (CD) are inflammatory bowel diseases (IBD) with variable, overlapping clinical features and complex pathophysiologies. To identify pathogenic processes underlying these disease subtypes, using single endoscopic pinch biopsies to estabolish 36 expression profiles, we elucidated gene expression patterns of active and inactive areas of UC and CD, and compared these to infectious colitis and healthy controls. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS2642

Platform:

GPL8300

36 Samples

Download data: CEL, EXP

Analysis of colonoscopic biopsies from patients with Crohn’s disease (CD) or ulcerative colitis (UC). CD and UC are inflammatory bowel diseases with variable, overlapping clinical features and complex pathophysiologies. Results provide insight into the pathogenesis of CD and UC.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 5 disease state, 3 specimen sets

Platform:

GPL8300

Series:

GSE6731

36 Samples

Download data: CEL, EXP

(Submitter supplied) USeq software package identified 44 microRNAs with altered expression (fold change ≥2 and false discovery rate ≤0.10) compared to controls. Among them, a panel of 11 microRNAs was aberrantly expressed between UC and CD. qRT-PCR validation assays performed on frozen tissue from additional samples of UC (n=20) and CD (n=10) confirmed specific differential expression of miR-147b, miR-194-2, miR-383, miR-615 and miR-1826 (P<0.05). more...

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL16791

37 Samples

Download data: XLS

(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) The objective of this study was to investigate the role of intestinal macrophages in inflammatory bowel disease. A prospective observational study was completed. Gut biopsies from patients with Ulcerative Colitis, Crohn’s Disease and Healthy donors were harvested. Using Fluorescence-activated cell sorting a purified CD14+/CD163+ intestinal macrophage population was isolated. RNA extracted and amplified from this population of macrophages was subjected to RNA-sequencing and bioinformatically analysed. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

28 Samples

Download data: TXT

(Submitter supplied) The aim of this study is to identify early pathogenic changes in ileal gene expression that precede the development of macroscopic disease in inflammatory bowel diseases (IBDs). We focused on two IBD phenotypes that were unlikely to overlap: 1) ileal Crohn’s disease (CD) patients undergoing initial ileocolic resection of diseased ileum; and 2) ulcerative colitis (UC) patients undergoing total colectomy. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6480

99 Samples

Download data: GPR

(Submitter supplied) We report whole mRNA gene expression and Percent Spliced In (PSI) estimates for rectal (n=59) and ileal (n=60) tissue samples of 33 patients with either Crohn's disease (n=19) or ulcerative colitis (n=14)

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL20301 GPL16791

119 Samples

Download data: TXT

(Submitter supplied) Microarrays were used to analyze the gene expression in endoscopic-derived intestinal mucosal biopsies from patients with inflammatory bowel diseas (IBD) and controls

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6244

194 Samples

Download data: CEL

(Submitter supplied) Abstract: Interleukin-10-deficient (Il10-/-) mice serve as a model for inflammatory bowel disease (IBD). The severity of colitis strongly depends on the inbred strain carrying the disrupted Il10 gene: C3H/HeJBir (C3) confers disease susceptibility, whereas C57BL/6J (B6) confers resistance. Genome-wide scans with microsatellite markers on segregrating backcross and F2 populations resulted in the detection of ten colitogenic quantitative trait loci (QTL). more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS1871

Platform:

GPL81

8 Samples

Download data: CEL, EXP

Analysis of colons of C3H/HeJBir and C57BL/6J strains following interleukin-10 (IL-10) gene disruption. IL-10 disruption leads to colitis in C3H/HeJBir strain but not in C57BL/6J. Results used to reduce the number of candidate genes associated with colitogenic quantitative trait loci regions.

Organism:

Mus musculus

Type:

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

Platform:

GPL81

Series:

GSE2172

8 Samples

Download data: CEL, EXP