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Table 6 Incomplete initial linkage disequilibrium (LD) scenario.

From: Linkage disequilibrium interval mapping of quantitative trait loci

Marker type MSE Difference in MSE P value
  T2 HAPim  
Initial frequency of Q = 5%
SNP(1) 0.99 0.68 0.031*
MST(2) 0.42 0.17 < 0.001**
Initial frequency of Q = 10%
SNP(1) 0.95 0.64 0.039*
MST(2) 0.63 0.20 < 0.001**
  1. * : P < 0.05, ** : P < 0.01
  2. (1) : single nucleotide polymorphism
  3. (2) : microsatellite
  4. Mean square errors (MSEs) in cM2 of quantitative trait locus (QTL) location estimates obtained by the T2 and HAPim methods for various heterogeneity parameter values, t = 100, N = 400, and a marker spacing of 0.25 cM.