The simulation results are summarized in Table 1. The “false positive ratio column” is calculated based on 1050 × 100,000 simulations (i.e. based on all SNPs created in all iterations). This column shows the proportion of TATES p-values <=0.05 among all 1050 ×100,000 simulations (TATES p-values). The columns “coefficients of normal variables for phenotype 1(2)” show the linear coefficients of the normal variables involved in creating phenotypes. For example, if we denote normal variables (created in each of 100,000 iterations) z1, z2, z3, z4 then column value (0.6, 0.7, 0.1, 0.4) for phenotype 1 means that phenotype 1 is defined as 0.6z1+0.7z2+0.1z3+0.4z4 for all individuals. The simulated phenotypes and genotypes for the iterations are independent; accordingly, any significant TATES p-value (i.e. TATES p-value <= 0.05) is considered as a false positive.
