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Table 3 Power of association tests at markers linked to causal polymorphims according to LD extent in the association panel, heritability and effect of causal polymorphism (% of trait variance explained)

From: Genetic diversity, linkage disequilibrium and power of a large grapevine (Vitis vinifera L) diversity panel newly designed for association studies

r 2 VS a Mean power at the marker linked to causal polymorphismb
h 2 = 0.5 h 2 = 0.7 h 2 = 0.9
effect = 10 % effect = 25 % effect = 10 % effect = 25 % effect = 10 % effect = 25 %
1 0.9 6.0 3.4 22.4 22.9 69.6
0.1 0.1 0.6 0.3 2.2 2.3 7.0
0.15 0.1 0.9 0.5 3.4 3.4 10.4
0.2 0.2 1.2 0.7 4.5 4.6 13.9
0.25 0.2 1.5 0.9 5.6 5.7 17.4
0.3 0.3 1.8 1.0 6.7 6.9 20.9
0.35 0.3 2.1 1.2 7.8 8.0 24.4
0.4 0.4 2.4 1.4 8.9 9.2 27.8
0.45 0.4 2.7 1.6 10.1 10.3 31.3
  1. aSquared correlation between the causal polymorphism and the linked marker, corrected by kinship and structure
  2. bMean power over the 314 SNPs with MAF > 5 % in the four genomic regions, assuming a family wise error rate of 5 % and using AIS kinship estimation, calculated as the power at the causal locus multiplied by the corrected LD between the causal locus and the marker