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Table 3 Multiple causal phenotypes

From: Significance testing in ridge regression for genetic data

   Approximate test Permutation Test
   0.1 1 10 100 0.1 1 10 100
SNPs          
   100 TPR 0.624 0.717 0.939 1.000 0.252 0.312 0.517 0.910
  FPR 0.064 0.061 0.091 0.250 0.001 0.001 0.004 0.078
   1000 TPR 0.210 0.250 0.670 0.970 0.020 0.070 0.170 0.770
  FPR 0.074 0.058 0.060 0.100 0.000 0.000 0.001 0.011
  1. Performance comparison between a permutation test and the approximate test in simulated genotype data with continuous phenotypes and multiple causal SNPs. Reported are proportion of true positive and false positive results at significance threshold α = 0.05. n = 500 and in each scenario ten SNPs are with MAF 0.10 - 0.15 are designated causal with effect size 1; the rest of the SNPs have 0 effect size. TPR = True Positive Rate, FPR = False positive rate. Results for each simulation scenario are averaged over ten replicates.