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Processing Affymetrix Expression Data

  • R. Gentleman
  • W. Huber
Part of the Use R! book series (USE R)

Abstract

In this chapter we do an analysis of Affymetrix gene expression data. We begin with the CEL files that contain the raw microarray readings, discuss how to do quality assessment, and proceed to normalization and the estimation of expression values. Finally, we determine differentially expressed genes.

Keywords

Chronic Lymphocytic Leukemia Perfect Match Volcano Plot Multiple Testing Problem Sample Annotation 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

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Copyright information

© Springer Science+Business Media, LLC 2008

Authors and Affiliations

  1. 1.Division of Public Health Sciences, Program in Computational BiologyFred Hutchinson Cancer Research CenterSeattleUSA
  2. 2.Wellcome Trust Genome CampusEuropean Bioinformatics Institute, EMBL Outstation HinxtonCambridgeUK

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