Skip to main content

Table 7 Scenario with phenocopies.

From: Linkage disequilibrium interval mapping of quantitative trait loci

Marker type MSE Difference in MSE P value
  T2 HAPim  
Phenocopy rate = 15% b
SNP(1) 2.65 2.03 0.021*
MST(2) 0.84 0.35 < 0.001**
Phenocopy rate = 30%
SNP(1) 4.90 3.29 < 0.001**
MST(2) 1.94 0.67 < 0.001**
  1. * : P < 0.05, ** : P < 0.01
  2. b: Phenocopy rate refers to the percentage of q alleles in the last generation that have given the same phenotype as the Q allele
  3. (1) : single nucleotide polymorphism
  4. (2) : microsatellite
  5. Mean square errors (MSEs) in cM2 of quantitative trait locus (QTL) location estimates obtained by the T2 and HAPim methods for various phenocopy rate values, t = 100, N = 400, and a marker spacing of 0.25 cM.