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Table 1 Parameter settings for null and power simulations with di-allelic and tetra-allelic loci

From: Power and sample size calculations in the presence of phenotype errors for case/control genetic association studies

  Low High
True case and control genotype frequencies p = 0.05 p = 0.15
Pr(affected misclassified as a control) (θ) 0.05 0.15
Pr(unaffected misclassified as a case) (φ) 0.05 0.15
Disease prevalence (K) 0.005 0.05
Number of cases () 500 1000
Number of controls () 500 1000
Significance level 5% 1%
Genotype frequency parameter for tetra-allelic loci (power simulations)   
d 1 2
  1. This table presents the low and high parameter settings we consider for null and power simulation calculations for di-allelic and tetra-allelic loci. As per the 27 factorial design, null and power simulations are performed on 128 distinct sets of parameter settings. Each simulation uses 100,000 iterations to determine empirical significance level (null) or simulation power. For di-allelic loci, case and control genotype frequencies are determined by the parameter p (see Methods – design of simulation program – power calculations for a fixed sample size). For tetra-allelic loci, genotype frequencies are determined by the parameter d (see Methods – Design of simulation program – power calculations for a fixed sample size).