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Table 2 Sensitivity of MDR to detect two-locus disease models

From: The effects of linkage disequilibrium in large scale SNP datasets for MDR

Scenario Relative LD Broad-Sense Heritability Exact Sensitivity Signal Sensitivity Signal Sensitivity when SNP1 Dropped Signal Sensitivity when SNP2 Dropped Signal Sensitivity when both SNPs Dropped
One SNP in LD Block and One Outside 40% 5% 77 81 22 44 7
   15% 100 100 3 31 1
   25% 100 100 0 23 0
  60% 5% 83 96 91 100 97
   15% 97 100 98 100 97
   25% 99 100 100 100 100
  80% 5% 11 65 63 60 63
   15% 77 97 99 84 86
   25% 86 98 99 83 86
  95% 5% 0 80 63 80 63
   15% 0 95 88 95 88
   25% 0 89 87 89 87
Two SNPs in Separa te LD Blocks 40% 5% 91 97 8 52 1
   15% 100 100 3 34 1
   25% 100 100 2 26 0
  60% 5% 88 98 100 95 96
   15% 91 96 100 97 100
   25% 94 97 100 95 99
  80% 5% 6 64 67 64 67
   15% 36 89 92 87 92
   25% 49 93 96 93 96
  95% 5% 19 79 79 79 79
   15% 23 91 91 92 92
   25% 28 93 93 94 94
Two SNPs in Same LD Block 60% 5% 96 96 96 97 99
   15% 97 97 98 96 100
   25% 98 98 98 96 100
  80% 5% 78 95 95 95 93
   15% 17 72 72 72 77
   25% 54 91 91 91 93
  95% 5% 57 91 91 91 91
   15% 29 86 86 86 86
   25% 41 94 94 94 94
  1. Detection sensitivity of MDR to identify functional SNPs from 40% to 95% LD amounts in epistatic two-locus models.