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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.
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BMC Genomics

ISSN: 1471-2164

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