Skip to main content

Table 7 Comparison of the power and false positive proportions of KWII to MDR, RPM, and regression approaches.

From: Comparison of information-theoretic to statistical methods for gene-gene interactions in the presence of genetic heterogeneity

Interaction Sample Size α Power %
    KWII MDR RPM Logistic
Interaction 1 600 0.001 68.9 7.8 48.8 68.3
   0.0001 42.2 3.7 29.5 43.3
  1200 0.001 98.9 39.1 94.9 99.1
   0.0001 95.6 10.0 87.8 95.4
  2400 0.001 100 65.3 100 100
   0.0001 100 13.8 100 100
Interaction 3 600 0.001 15.1 0.04 7.2 14.8
   0.0001 4.8 0.03 3.2 5.2
  1200 0.001 47.6 3.6 28.1 48.7
   0.0001 26.6 0.04 15.2 24.6
  2400 0.001 95.1 6.6 84.4 94.0
   0.0001 83.5 0.05 70.8 84.2
All 3 Interactions 600 0.001 7.6 0.01 2.2 7.5
   0.0001 15.2 0.01 0.5 14.1
  1200 0.001 48.1 0.03 25.7 47.8
   0.0001 26.6 0.01 11.5 22.1
  2400 0.001 95.1 2.9 84.4 94.0
   0.0001 83.5 0.01 70.8 84.2
Interaction Sample Size α* Proportion of False Positives
    KWII MDR RPM Logistic
All 3 Interactions 600 0.001 - 0.0021 0.0010 0.0013
   0.0001 - 0.0010 0.0001 0.0001
  1200 0.001 - 0.0075 0.0013 0.0016
   0.0001 - 0.0011 0.0003 0.0002
  2400 0.001 - 0.0103 0.0009 0.0013
   0.0001 - 0.0014 0.0002 0.0002
  1. *α is calibrated to the empirical false positive rate of KWII.
  2. The model used for the simulations contained three interacting pairs of SNP as summarized in Table 1: Interaction 1 and Interaction 2 in were based on [16] whereas Interaction 3 was based on [2].
Back to article page

BMC Genomics

ISSN: 1471-2164

Contact us