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Easy Differential Expression

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

Abstract

In this short exercise, we explore the most basic approach to the selection of differentially expressed genes between two classes: first, a nonspecific filtering step to remove probes for genes that appear to be always unexpressed or at least not differentially expressed. Second, a probe-by-probe statistical test, and third, multiple testing correction to get an attenuated test statistic through the false discovery rate (FDR). There are many variations and improvements to the procedure shown here, and you can learn more about these in Chapter 7.

Keywords

False Discovery Rate Cytogenetic Abnormality Multiple Testing Correction True Probability Implicit Testing 
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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