Table 2 Nagelkerke's R2 at differenct p value thresholds
From: Polygenic effects on the risk of Alzheimer’s disease in the Japanese population
PRS (All SNPs) | PRS.noAPOE (except APOE region) | |||||
|---|---|---|---|---|---|---|
pT | Nagelkerke's R2 | p value | #SNPs | Nagelkerke's R2 | p value | #SNPs |
p < 5 × 10–8 | 0.148 | 5.92 × 10–8 | 81 | 0.081 | 4.57 × 10–5 | 44 |
p < 1 × 10–6 | 0.143 | 9.91 × 10–8 | 107 | 0.067 | 2.07 × 10–4 | 70 |
p < 1 × 10–5 | 0.167 | 1.40 × 10–8 | 173 | 0.085 | 3.18 × 10–5 | 131 |
p < 1 × 10–4 | 0.091 | 1.53 × 10–5 | 410 | 0.029 | 0.013 | 364 |
p < 1 × 10–3 | 0.034 | 6.85 × 10–3 | 1,696 | 0.014 | 0.077 | 1,642 |
p < 1 × 10–2 | 0.004 | 0.324 | 10,101 | 0.007 | 0.213 | 10,041 |
p < 0.05 | 0.000 | 0.929 | 33,065 | 0.000 | 0.979 | 32,999 |
p < 0.5 | 0.005 | 0.288 | 121,721 | 0.004 | 0.332 | 121,647 |
p < 1.0 | 0.006 | 0.262 | 158,289 | 0.005 | 0.303 | 158,208 |