Table 3 Genome-wide significant pleiotropic loci for each pair of cognitive domains (excluding the APOE region)
Chr | Position | Variant | A1/A2a (MAF) | Nearest Gene | Cognitive Domain | Individual locus | Pleiotropy | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
βG (SE) | PG | βG×Age (SE) | PG×Age | PJoint | PPlaco, G | PPlaco, G×Age | PPlaco, Joint | ||||||
Total sample | |||||||||||||
 2 | 127135234 | rs6733839 | T/C (0.403) | BIN1 CYP27C1 | Language | -0.031 (0.006) | 6.90 × 10–8 | -0.002 (0.001) | 3.62 × 10–3 | 2.70 × 10–8 | 2.72 × 10–10 | 9.11 × 10–4 | 9.01 × 10–12 |
Memory | -0.039 (0.006) | 2.20 × 10–9 | -0.002 (0.001) | 1.62 × 10–3 | 2.37 × 10–9 | ||||||||
 4 | 179150192 | rs73005629 | C/T (0.022) | LOC107984373 | Language | -0.048 (0.019) | 1.21 × 10–2 | -0.007 (0.002) | 2.06 × 10–4 | 1.19 × 10–4 | 3.69 × 10–3 | 9.32 × 10–4 | 6.16 × 10–5 |
Memory | -0.062 (0.021) | 3.97 × 10–3 | -0.006 (0.002) | 8.12 × 10–3 | 2.11 × 10–3 | ||||||||
 8 | 102060792 | rs56162098 | C/T (0.138) | NCALD | Language | 0.019 (0.008) | 1.64 × 10–2 | 0.001 (0.001) | 1.84 × 10–1 | 3.08 × 10–2 | 5.85 × 10–5 | 5.74 × 10–3 | 6.86 × 10–6 |
Memory | -0.013 (0.009) | 1.68 × 10–1 | -0.001 (0.001) | 1.71 × 10–1 | 2.17 × 10–1 | ||||||||
 9 | 10155013 | rs145989094 | A/T (0.013) | PTPRD | Exec Function | -0.056 (0.026) | 3.22 × 10–2 | -0.006 (0.002) | 1.26 × 10–2 | 1.04 × 10–2 | 2.70 × 10–2 | 2.79 × 10–3 | 9.93 × 10–4 |
Memory | -0.058 (0.028) | 4.56 × 10–2 | -0.008 (0.003) | 3.14 × 10–3 | 5.92 × 10–3 | ||||||||
 9 | 10155013 | rs145989094 | A/T (0.013) | PTPRD | Language | -0.093 (0.025) | 3.40 × 10–4 | -0.004 (0.003) | 9.29 × 10–2 | 8.84 × 10–4 | 1.22 × 10–2 | 3.47 × 10–2 | 4.65 × 10–3 |
Memory | -0.058 (0.028) | 4.56 × 10–2 | -0.008 (0.003) | 3.14 × 10–3 | 5.92 × 10–3 | ||||||||
 16 | 83947805 | rs12447050 | C/T (0.400) | OSGIN1 MLYCD | Exec Function | 0.016 (0.006) | 4.70 × 10–3 | 0.002 (0.001) | 4.01 × 10–4 | 1.03 × 10–4 | 2.03 × 10–3 | 9.76 × 10–4 | 3.72 × 10–5 |
Memory | 0.018 (0.006) | 4.92 × 10–3 | 0.002 (0.001) | 9.28 × 10–3 | 2.61 × 10–3 | ||||||||
Clinic-based cohorts | |||||||||||||
 2 | 127135234 | rs6733839 | T/C (0.409) | BIN1 CYP27C1 | Language | -0.063 (0.010) | 4.23 × 10–10 | -0.001 (0.001) | 2.09 × 10–1 | 1.98 × 10–9 | 1.78 × 10–10 | 2.20 × 10–1 | 6.85 × 10–10 |
Memory | -0.068 (0.012) | 5.23 × 10–9 | -0.001 (0.001) | 2.08 × 10–1 | 1.60 × 10–8 | ||||||||
 4 | 179150192 | rs73005629 | C/T (0.022) | LOC107984373 | Language | -0.112 (0.033) | 7.70 × 10–4 | -0.014 (0.003) | 1.68 × 10–5 | 4.66 × 10–7 | 2.06 × 10–4 | 5.11 × 10–6 | 3.12 × 10–8 |
Memory | -0.149 (0.038) | 1.13 × 10–4 | -0.015 (0.004) | 4.04 × 10–5 | 1.47 × 10–7 | ||||||||
 8 | 102060792 | rs56162098 | C/T (0.138) | NCALD | Language | 0.006 (0.014) | 6.89 × 10–1 | 0.000 (0.001) | 7.49 × 10–1 | 8.81 × 10–1 | 7.74 × 10–1 | 9.29 × 10–1 | 9.56 × 10–1 |
Memory | 0.009 (0.017) | 5.73 × 10–1 | 0.001 (0.002) | 3.54 × 10–1 | 5.62 × 10–1 | ||||||||
 9 | 10155013 | rs145989094 | A/T (0.013) | PTPRD | Exec Function | 0.016 (0.044) | 7.25 × 10–1 | 0.002 (0.004) | 7.27 × 10–1 | 8.85 × 10–1 | 4.38 × 10–1 | 8.92 × 10–1 | 7.33 × 10–1 |
Memory | 0.081 (0.053) | 1.28 × 10–1 | 0.000 (0.005) | 9.83 × 10–1 | 3.08 × 10–1 | ||||||||
 9 | 10155013 | rs145989094 | A/T (0.013) | PTPRD | Language | 0.026 (0.046) | 5.78 × 10–1 | 0.002 (0.004) | 6.27 × 10–1 | 7.68 × 10–1 | 5.27 × 10–1 | 7.63 × 10–1 | 7.82 × 10–1 |
Memory | 0.081 (0.053) | 1.28 × 10–1 | 0.000 (0.005) | 9.83 × 10–1 | 3.08 × 10–1 | ||||||||
 16 | 83947805 | rs12447050 | C/T (0.404) | OSGIN1 MLYCD | Exec Function | 0.005 (0.010) | 6.31 × 10–1 | 0.001 (0.001) | 4.59 × 10–1 | 6.83 × 10–1 | 8.02 × 10–1 | 3.63 × 10–1 | 6.41 × 10–1 |
Memory | 0.001 (0.012) | 9.56 × 10–1 | 0.000 (0.001) | 7.65 × 10–1 | 9.54 × 10–1 | ||||||||
Community-based cohorts | |||||||||||||
 2 | 127135234 | rs6733839 | T/C (0.388) | BIN1 CYP27C1 | Language | -0.017 (0.007) | 1.68 × 10–2 | -0.002 (0.001) | 1.70 × 10–2 | 6.57 × 10–3 | 1.99 × 10–3 | 8.10 × 10–3 | 2.52 × 10–4 |
Memory | -0.027 (0.008) | 5.71 × 10–4 | -0.002 (0.001) | 1.69 × 10–2 | 1.11 × 10–3 | ||||||||
 4 | 179150192 | rs73005629 | C/T (0.021) | LOC107984373 | Language | -0.011 (0.023) | 6.32 × 10–1 | -0.003 (0.002) | 2.25 × 10–1 | 4.48 × 10–1 | 8.73 × 10–1 | 2.86 × 10–1 | 5.58 × 10–1 |
Memory | -0.006 (0.026) | 8.24 × 10–1 | 0.000 (0.003) | 8.79 × 10–1 | 9.42 × 10–1 | ||||||||
 8 | 102060792 | rs56162098 | C/T (0.138) | NCALD | Language | 0.026 (0.010) | 7.77 × 10–3 | 0.002 (0.001) | 1.39 × 10–1 | 1.46 × 10–2 | 4.69 × 10–7 | 7.64 × 10–5 | 1.23 × 10–9 |
Memory | -0.026 (0.011) | 1.65 × 10–2 | -0.003 (0.001) | 1.01 × 10–2 | 9.76 × 10–3 | ||||||||
 9 | 10155013 | rs145989094 | A/T (0.013) | PTPRD | Exec Function | -0.105 (0.032) | 1.25 × 10–3 | -0.011 (0.003) | 3.18 × 10–4 | 9.49 × 10–5 | 1.09 × 10–4 | 1.19 × 10–5 | 3.85 × 10–8 |
Memory | -0.131 (0.034) | 1.62 × 10–4 | -0.015 (0.003) | 2.68 × 10–5 | 1.02 × 10–5 | ||||||||
 9 | 10155013 | rs145989094 | A/T (0.013) | PTPRD | Language | -0.154 (0.031) | 8.58 × 10–7 | -0.010 (0.003) | 4.26 × 10–3 | 1.15 × 10–6 | 1.56 × 10–6 | 1.71 × 10–4 | 8.34 × 10–9 |
Memory | -0.131 (0.034) | 1.62 × 10–4 | -0.015 (0.003) | 2.68 × 10–5 | 1.02 × 10–5 | ||||||||
 16 | 83947805 | rs12447050 | C/T (0.391) | OSGIN1 MLYCD | Exec Function | 0.024 (0.007) | 1.02 × 10–3 | 0.003 (0.001) | 8.06 × 10–5 | 1.16 × 10–5 | 9.49 × 10–5 | 1.46 × 10–5 | 4.09 × 10–8 |
Memory | 0.029 (0.008) | 1.71 × 10–4 | 0.003 (0.001) | 2.00 × 10–4 | 3.00 × 10–5 | ||||||||