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Table 1 Simulation parameter settings for the single-locus simulations

From: TDT-HET: A new transmission disequilibrium test that incorporates locus heterogeneity into the analysis of family-based association data

Item Parameter Setting
1 MOI Dominant, Recessive, Multiplicative
2 ϕ 0.05, 0.15
3 R 2 1.0 (Null), 2.25
4 π 1 0.25, 0.50, 0.75, 1.0
5 p 0.10, 0.25, 0.50, 0.75, 0.90
6 Number of trios 1000
7 Number of permutations per statistic 500
8 Number of starting points 200
9 Number of EM steps per starting point 100
10 ε 10-6
11 Penalty C in EM algorithm (Equation (1)) 0.001
12 Number of replicates per vector (Items 1-3) 250
  1. MOI = Mode of inheritance
  2. ϕ = Disease prevalence
  3. R 2 = Genotype relative risk for disease allele homozygote
  4. π 1 = Proportion of linked trios
  5. p = Disease allele frequency
  6. ε = Tolerance