Differential Gene Expression between involved and uninvolved sites of Crohn’s disease: Insights into a Distinctive Pathogenesis Profile

Our objective was to elucidate patterns of gene expression underlying the progression of CD disease. Surgery biopsies (n=60) were assayed using the Illumina cDNA-mediated Annealing, Selection, Extension, and Ligation (DASL) microarray process specifically designed for use with Formalin-Fixed, Paraffin-Embedded (FFPE) clinical samples. Tissue was sampled in consecutive active involved and uninvolved sites at the same time in individual CD patients, and these samples (CD involved and CD uninvolved) were compared with each other as well as to non-inflammatory bowel disease (non-IBD) healthy controls. Gene expression of CD involved and uninvolved is compared at a global level using total RNA from the same CD pateints using the Illumina microarray platform.