Biomedical and Translational Informatics Laboratory


Method Description:

MDR-PDT – This is a new hybrid method which is merging the strengths of MDR (multifactor dimensionality reduction) and genotype-PDT (genotype pedigree disequilibrium test ). One of the major strengths of MDR is the ability to detect gene-gene and gene-environment interactions even when the main effects are absent. One of the major strengths of genotype-PDT is the ability to carry out single-locus linkage disequilibrium tests on extended pedigrees. However, MDR cannot be used on pedigree data and genotype-PDT is not effective at detecting interactions without main effects. The new hybrid method, MDR-PDT, can be used to examine pedigrees for gene-gene and gene-environment interactions.

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Relevant Publications:

  • Edwards TL, Pericak-Vance M, Gilbert JR, Haines JL, Martin ER, Ritchie MD. An association analysis of Alzheimer disease candidate genes detects an ancestral risk haplotype clade in ACE and putative multilocus association between ACE, A2M, and LRRTM3. American Journal of Medical Genetics Part B, Neuropsychiatric Genetics, 67(3):183-92 (2009).
  • Edwards TL, Torstenson ES, Martin EM, Ritchie MD. A cross-validation procedure for general pedigrees and matched odds ratio fitness metric implemented for the multifactor dimensionality reduction pedigree disequilibrium test MDR-PDT and cross-validation: power studies. Genetic Epidemiology, 34(2):194-9 (2010).
  • Martin ER, Ritchie MD, Kang S, Hahn L, Moore JH. A novel method to identify potential interactions in nuclear families: The MDR-PDT. Genetic Epidemiology, 30:111-23 (2006).
  • Bush WS, Edwards TL, Dudek SM, McKinney BA, Ritchie MD. Alternative contingency table measures improves the power and detection of Multifactor Dimensionality Reduction. BMC Bioinformatics, 9:238 (2008).
  • Motsinger AA, Ritchie MD. The effect of reduction in cross-validation intervals on the performance of multifactor dimensionality reduction. Genetic Epidemiology, 30: 546-555 (2006).
  • Edwards TL, Turner SD, Torstenson ES, Dudek SM, Martin EM, Ritchie MD. A general framework for formal tests of interaction after exhaustive search methods with applications to MDR and MDR-PDT. PLOS ONE, 5(2):e9363 (2010).
  • Edwards TL, Wang X, Chen Q, Wormly B, Riley B, O’Neill FA, Walsh D, Ritchie MD, Kendler KS, Chen X. Interaction between interleukin 3 and dystrobrevin-binding protein 1 in schizophrenia. Schizophrenia Research, 106(2-3); 208-17 (2008).

Related Links:

  • MDR at the Computational Genetics Laboratory, Dartmouth –