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Table 2 Results of linkage analyses of replicate 4 using original affection status.

From: Linkage analysis of the GAW14 simulated dataset with microsatellite and single-nucleotide polymorphism markers in large pedigrees

Results from linkage analyses> Type of Marker Set
  STR-7.5 cM SNP-3 cM SNP-1 cM SNP-0.3 cM
Information contenta 0.84 0.75 0.86 0.96
Two-point LOD scoreb 0.93 0.31 1.97 1.97
Multipoint Zmax/NPL p-valuesc     
GENEHUNTER     
   NPL p-value 0.0026 0.033 0.0028 0.00084
   Multipoint HLOD (α) 1.34 (0.51) 0.49 (0.36) 2.54 (0.70) 2.91 (0.74)
MERLIN     
   NPL p-value 0.0006 0.005 0.0006 0.0001
SIMWALK2     
   NPL p-value 0.0016 0.1153 0.0055 NDe
SIBPAL     
   p-value 0.0114 0.0203 0.0198 0.00014
1-LOD interval (cM)d 7.85 20.16 12.14 5.16
  1. aAveraged information content estimated from all markers on STR, SNP-1 cM, SNP-0.3 cM marker sets and the telomeric 50 markers on SNP-3 cM map using the entropy function in MERLIN.
  2. bReflected the highest LOD scores obtained at the telomeric region.
  3. cLinkage signal at the telomeric region of chromosome 3 was successfully detected by all marker panels. LOD scores and p-values reflected the most significant results for each panel.
  4. dEstimated from multipoint LOD-score curves obtained from GENEHUNTER analyses.
  5. eNot determined because of the failure in convergence.