Group for Research in Decision Analysis

Finding differentially expressed genes from Affymetrix microarray data

Angelo J. Canty

In this talk I will describe the Affymetrix microarray platform for finding gene expression of large numbers of genes. These arrays are commonly used to look for genes which are differentially expressed between two populations. One of the most popular ways to find such genes is the Significance Analysis of Microarrays (SAM) methodology introduced by Tusher et al (2001) which I shall describe. I will talk about some of the issues which arise in such an analysis. I will also describe a mouse model in which we wish to study locus interactions in susceptibility to Type 1 Diabetes and how the basic SAM methods can be extended to such situations.