A Simple and Computationally Efficient Approach to Multifactor Dimensionality Reduction Analysis of Gene-Gene Interactions for Quantitative Traits

Jiang Gui, Jason H Moore, Scott M Williams, Peter Andrews, Hans L Hillege, Pim van der Harst, Gerjan Navis, Wiek H Van Gilst, Folkert W Asselbergs and Diane Gilbert-Diamond

PLOS ONE, 2013, vol. 8, issue 6, 1-7

Abstract: We present an extension of the two-class multifactor dimensionality reduction (MDR) algorithm that enables detection and characterization of epistatic SNP-SNP interactions in the context of a quantitative trait. The proposed Quantitative MDR (QMDR) method handles continuous data by modifying MDR’s constructive induction algorithm to use a T-test. QMDR replaces the balanced accuracy metric with a T-test statistic as the score to determine the best interaction model. We used a simulation to identify the empirical distribution of QMDR’s testing score. We then applied QMDR to genetic data from the ongoing prospective Prevention of Renal and Vascular End-Stage Disease (PREVEND) study.

Date: 2013
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Persistent link: https://EconPapers.repec.org/RePEc:plo:pone00:0066545

DOI: 10.1371/journal.pone.0066545

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