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Table 2 Mean of p-value distribution, summarized over all 80 pseudo-traits using 7 MB definition of chromosome ends (Affymetrix data)

From: Critical values and variation in type I error along chromosomes in the COGA dataset using the applied pseudo-trait method

  Whole genome p term (7 MB)b Mid-chromosome q term decilesc
Haseman-Elston
   mean 0.503 0.502 0.503 0.506
   SD 0.018 0.035 0.019 0.037
   No. SNPsa 9857–10803 383–437 9059–9968 330–386
ROMP-one
   mean 0.496 0.494 0.496 0.498
   SD 0.015 0.023 0.015 0.020
   No. SNPsa 9817–10802 380–436 9023–9968 330–386
ROMP/ROOP-one
   mean 0.487 0.485 0.487 0.488
   SD 0.021 0.028 0.021 0.026
   No. SNPsa 9769–10802 380–436 9016–9968 330–386
ROMP-all
   mean 0.479 0.479 0.478 0.483
   SD 0.032 0.035 0.032 0.034
   No. SNPsa 9845–10807 381–437 9051–9972 330–386
ROMP/ROOP-all
   mean 0.456 0.453 0.456 0.459
   SD 0.034 0.042 0.034 0.035
   No. SNPsa 9825–10807 381–437 9030–9972 330–386
  1. aThe number of SNPs varies due to missing data and variable numbers of markers excluded by synteny.
  2. bThe p ends of chromosomes 13, 14, 15, 19, 21, 22 could not be used.
  3. cThe q ends of chromosomes 9, 16, 17 could not be used.