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Analysis of microarray data is used extensively to search for and discover clues to the molecular causes of important biological phenomena. As microarrays increase in popularity, the demand has grown for biologist-friendly applications that simplify the quality-control and analysis processes and present useful graphical representations of high-dimensional data sets. Expression Console, recently introduced by Affymetrix, provides a simple interface for normalization and summarization of data from Affymetrix CEL files to produce CHP files for further analysis. This paper explains how the Affymetrix Expression CHP Wizard in JMP Genomics automates many steps in a comprehensive microarray analysis workflow by combining an interactive interface with standard JMP Genomics tools.
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