Table 3 Type I error rates of the G×E test and the joint test for common-variant (CV) simulations
Effect size consideredMAFs of the causal SNPsSimRegmin-PGESAT
Joint test Embedded ImageNA0.044 (0.0065)a0.060 (0.0075)NA
G×E test Embedded Image
Embedded ImageNA0.037 (0.0060)0.054 (0.0072)0.036 (0.0059)
Embedded Image0.009, 0.0940.042 (0.0068)0.040 (0.0062)0.053 (0.0071)
Embedded Image0.009, 0.19660.040 (0.0062)0.043 (0.0064)0.055 (0.0072)
Embedded Image0.094, 0.19660.040 (0.0062)0.045 (0.0066)0.070 (0.0081)
Embedded Image0.1966, 0.22220.047 (0.0067)0.044 (0.0065)0.051 (0.0070)
Embedded Image0.2991, 0.41880.049 (0.0068)0.050 (0.0069)0.054 (0.0072)
  • The corresponding standard errors (SEs) are shown in parentheses. The values in italics/boldface type are those whose 95% confidence intervals (i.e., rate ± 1.96 × SE) fall below/above the nominal level. The results were obtained based on 1000 replications, and Embedded Image and Embedded Image are the effect sizes of the causal SNPs for the main effect and the G×E effect, respectively.

  • a Standard errors of the type I error rates.