Skip to main content

Table 3 Type I error of score tests, as a function of haplotype diversity

From: Density-based clustering in haplotype analysis for association mapping

   Haplotype analyses Cluster analyses
Diversity Haplotypesa α = 0.05 α = 0.01 d.f.b α = 0.05 α = 0.01 d.f.b
6 Markers        
   Low 4.2 0.031 0.001 3.17 0.060 0.012 1.21
   Medium 10 0.022 0.003 8.70 0.035 0.003 4.02
   High 17 0.015 0.001 15.40 0.035 0.002 7.12
   Very high 28 0.010 0.002 23.02 0.040 0.007 10.06
8 Markers        
   Low 5.2 0.027 0.006 4.18 0.042 0.007 1.00
   Medium 15 0.030 0.003 11.53 0.047 0.010 4.81
   High 25 0.011 0.000 21.28 0.038 0.005 8.82
   Very high 48 0.002 0.000 40.15 0.025 0.001 23.18
  1. aMean haplotype diversity over samples of 200 each RA cases and controls taken from 50 different Problem 3 replicates.
  2. bDegrees of freedom from the score test averaged over 1000 samples of 150 each cases and controls analyzed with adjustment for sex and DRB1*04 alleles.