Construction and validation of the APOCHIP, a spotted oligo-microarray for the study of beta-cell apoptosis

Background: Type 1 diabetes mellitus (T1DM) is a autoimmune disease caused by a long-term negative balance between immune-mediated beta-cell damage and beta-cell repair/regeneration. Following immune-mediated damage the beta-cell fate depends on several genes up- or downregulated in parallel and/or sequentially. Based on the information obtained by the analysis of several microarray experiments of beta-cells exposed to pro-apoptotic conditions (e.g. double stranded RNA (dsRNA) and cytokines), we have developed a spotted rat oligonucleotide microarray, the APOCHIP, containing 60-mer probes for 574 genes selected for the study of betacell apoptosis. Results: The APOCHIP was validated by a combination of approaches. First we performed an internal validation of the spotted probes based on a weighted linear regression model using dilution series experiments. Second we profiled expression measurements in ten dissimilar rat RNA samples for 515 genes that were represented on both the spotted ...

• Type: Journal
• Year: 2005
• Where: BMCBI
• Authors: Nils E. Magnusson, Alessandra K. Cardozo, Mogens Kruhøffer, Decio L. Eizirik, Torben F. Ørntoft, Jens L. Jensen
• Keywords: Beta-cells, BMCBI 2005, Expression Measurements, Spotted Probes