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Practical and Theoretical Considerations in Study Design for Detecting Gene-Gene Interactions Using MDR and GMDR Approaches

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  • Guo-Bo Chen
  • Yi Xu
  • Hai-Ming Xu
  • Ming D Li
  • Jun Zhu
  • Xiang-Yang Lou

Abstract

Detection of interacting risk factors for complex traits is challenging. The choice of an appropriate method, sample size, and allocation of cases and controls are serious concerns. To provide empirical guidelines for planning such studies and data analyses, we investigated the performance of the multifactor dimensionality reduction (MDR) and generalized MDR (GMDR) methods under various experimental scenarios. We developed the mathematical expectation of accuracy and used it as an indicator parameter to perform a gene-gene interaction study. We then examined the statistical power of GMDR and MDR within the plausible range of accuracy (0.50∼0.65) reported in the literature. The GMDR with covariate adjustment had a power of>80% in a case-control design with a sample size of≥2000, with theoretical accuracy ranging from 0.56 to 0.62. However, when the accuracy was

Suggested Citation

  • Guo-Bo Chen & Yi Xu & Hai-Ming Xu & Ming D Li & Jun Zhu & Xiang-Yang Lou, 2011. "Practical and Theoretical Considerations in Study Design for Detecting Gene-Gene Interactions Using MDR and GMDR Approaches," PLOS ONE, Public Library of Science, vol. 6(2), pages 1-9, February.
    • Handle: RePEc:plo:pone00:0016981
    DOI: 10.1371/journal.pone.0016981
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