Hypergeometric Testing Used for Gene Set Enrichment Analysis

Part of the Use R! book series (USE R)


After the set of interesting genes has been determined, say those that are differentially expressed, a next step in the analysis is to attempt to find functional relationships among those genes that might help better elucidate the underlying biology. These methods typically rely on existing or predefined sets of genes. In this chapter we show how to carry out Hypergeometric tests to identify potentially interesting gene sets.


Acute Lymphoblastic Leukemia Chromosome Band Interesting Gene Hypergeometric Test Conditional Test 


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Copyright information

© Springer Science+Business Media, LLC 2008

Authors and Affiliations

  1. 1.Scientific Software EngineerSeattleUSA
  2. 2.Division of Public Health Sciences, Program in Computational BiologyFred Hutchinson Cancer Research CenterSeattleUSA

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