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Table 2 Size and power of tests for gene-gene interactions

From: Jackknife-based gene-gene interaction tests for untyped SNPs

Model WTT WTT c Dosage/ Dosage/ Truth/ Truth/
    WTT WTT c WTT WTT c
Null 0.007 0.007 0 0 0.008 0.008
D D 0.55 0.58 0.15 0.28 0.81 0.87
R R 0.57 0.61 0.30 0.36 0.81 0.83
D R 0.42 0.46 0.13 0.17 0.68 0.73
R ∩D 0.22 0.26 0.05 0.08 0.40 0.46
R ∩R 0.67 0.69 0.34 0.42 0.85 0.90
D ∩D 0.15 0.19 0.01 0.04 0.27 0.32
  1. M D for markers G and H using the HapMap CEU samples are 0.9003 and 0.7615, respectively. WTT and WTT c correspond to tests (5) and (6) where V 0u was estimated by applying the jackknife on imputed values. Dosage/WTT and Truth/WTT are test (4) using the asymptotic variance based on expected genotypes and true genotypes, respectively. Dosage/ WTT c and Truth/ WTT c are ICPT on expected genotypes and true genotypes, respectively. Models are described in Table 1. Number of individuals in cases is 5000. Significance levels for size and power are 0.01 and 0.05, respectively. WTT, Wald-type test; WTT c , Wald-type test with constraints