Microarray dimension reduction based on maximizing Mantel correlation coefficients using a genetic algorithm search strategy

Elena Deych, Robert Culverhouse, William D. Shannon

Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

Abstract

We present the GA-Mantel algorithm to find in high dimensional microarray data a subset of genes that captures relevant spatial relationships among the samples, in order to reduce the data for further analysis and eventually to identify meaningful biological markers. GA-Mantel uses a genetic algorithm to search over possible probe subsets using the Mantel correlation as the scoring measure for assessing the quality of any given probe subset, and consensus methods for selecting the final list of important genes. GA-Mantel is evaluated on both artificial data sets and on experimental microarray data taken from leukemia patients. Current results indicate the GA-Mantel method exhibits promise as a way of efficiently identifying information-rich gene subsets in large data sets while avoiding the curse of dimensionality.

Original languageEnglish
Title of host publicationClassification as a Tool for Research - Proceedings of the 11th IFCS Biennial Conference and 33rd Annual Conference of the Gesellschaft fur Klassifikation e.V., GfKl 2009
PublisherKluwer Academic Publishers
Pages49-60
Number of pages12
ISBN (Print)9783642107443
DOIs
StatePublished - 2010
Event11th Biennial Conference of the International Federation of Classification Societies, IFCS 2009 and with the 33rd Annual Conf of the German Classification Society (Gesellschaft fur Klassifikation) on Classification as a Tool fo Research, GfKl 2009 - Dresden, Germany
Duration: Mar 13 2009Mar 18 2009

Publication series

NameStudies in Classification, Data Analysis, and Knowledge Organization
ISSN (Print)1431-8814

Conference

Conference11th Biennial Conference of the International Federation of Classification Societies, IFCS 2009 and with the 33rd Annual Conf of the German Classification Society (Gesellschaft fur Klassifikation) on Classification as a Tool fo Research, GfKl 2009
Country/TerritoryGermany
CityDresden
Period03/13/0903/18/09

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