Analysis of microarray gene expression data

This chapter reviews the methods utilized in processing and analysis of gene expression data generated using DNA microarrays. This type of experiment allows relative levels of mRNA abundance in a set of tissue samples or cell populations to be determined for thousands of genes simultaneously. Naturally, such an experiment requires computational and statistical analysis techniques. As processing begins, the computational procedures are largely determined by the technology and experimental setup used. Subsequently, as more reliable intensity values for genes emerge, pattern discovery methods come into play. The most striking peculiarity of this kind of data is that one usually obtains measurements for thousands of genes for a much smaller number of conditions. This is at the root of several of the statistical questions discussed here.

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