Microarray datasets (GSE37283; (17 (link))) were downloaded from the Gene Expression Omnibus database (https://www.ncbi.nlm.nih.gov/geo/ ). Detailed patient demographic information is available in Table 1 of (17 (link)). Microarray analysis was performed as previously described (18 (link)). Microarray assay were performed on 20 RNA samples isolated from colon mucosa of 20 patients, including 5 normal controls, 4 quiescent UC, and 11 UC with neoplasia. Inclusion criteria is as follows: a previous clinical diagnosis of UC confirmed by an expert GI pathologist, a disease duration > 7 years, and an extent of disease >20 cm proximal to the anal verge. For microarray analysis, expression and raw expression data were summarized and normalized using the Robust Multi-array Average algorithm from the Bioconductor library for the R statistical programming system. All samples were clustered using Ward’s method in Spotfire (TIBCO Software, Palo Alto, CA).
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Transcriptional Profiling of Ulcerative Colitis
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Corresponding Organization : North Medical Center
Other organizations : Université Clermont Auvergne, Emory University, University of Michigan–Ann Arbor, Veterans Health Administration
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Variable analysis
independent variables
- Disease state (normal control, quiescent UC, UC with neoplasia)
- Gene expression levels
- Previous clinical diagnosis of UC confirmed by an expert GI pathologist
- Disease duration > 7 years
- Extent of disease >20 cm proximal to the anal verge
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