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Table 2 Results of two-fold cross validations using simulated variants

From: Classification of genetic variants in genes associated with Lynch syndrome using a clinical history weighting algorithm

   Fold A Fold B
MLH1   Variant type Variant type
   Pathogenic Benign Pathogenic Benign
 HWA Call Pathogenic 24880 60 24836 35
  Benign 176 49748 166 49765
  No Call 444 692 498 700
 Total Trials 25500 50500 25500 50500
 PPV 0.9962 0.9978
 NPV 0.9978 0.9979
MSH2 Variant Type Variant Type
   Pathogenic Benign Pathogenic Benign
 HWA Call Pathogenic 24775 12 24262 14
  Benign 111 50329 164 50243
  No Call 614 159 1074 243
 Total Trials 25500 50500 25500 50500
 PPV 0.9988 0.9986
 NPV 0.9991 0.9987
MSH6 Variant Type Variant Type
   Pathogenic Benign Pathogenic Benign
 HWA Call Pathogenic 23787 9 24014 25
  Benign 180 50262 88 49754
  No Call 1533 229 1398 721
 Total Trials 25500 50500 25500 50500
 PPV 0.9987 0.9965
 NPV 0.9990 0.9995
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