Table 2.
Genotype description and frequency distribution.
| Gene ID | Chromosome Location |
SNP | NCBI Gene Location |
Alleles | PD Genotype Frequency |
Control Genotype Frequency |
PD vs Controls | |||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Unadjusted Genotype |
Adjusted Genotype |
Unadjusted Collapsed Genotype |
Adjusted Collapsed Genotype |
|||||||||||
| EE | EF | FF | EE | EF | FF | p-value | p-value | p-value | p-value | |||||
| Amyloid Precusor Protein | ||||||||||||||
| APP | 21q21.3 | rs466448 | 5' region | G/a | 0.19 | 0.52 | 0.29 | 0.25 | 0.49 | 0.26 | 0.324 | 0.122 | 0.578 | 0.136 |
| rs2830101 | intron 1 | G/a | 0.08 | 0.46 | 0.46 | 0.13 | 0.41 | 0.46 | 0.601 | 0.394 | 0.990 | 0.728 | ||
| rs214484 | intron 17 | C/g | 0.07 | 0.47 | 0.46 | 0.11 | 0.42 | 0.47 | 0.697 | 0.909 | 0.917 | 0.987 | ||
| rs2040273 | 3' region | A/g | 0.13 | 0.51 | 0.36 | 0.16 | 0.43 | 0.41 | 0.888 | 0.661 | 0.491 | 0.545 | ||
| α-Secretase | ||||||||||||||
| ADAM10 | 15q22.1 | rs514049 | 5' region | C/a | 0.13 | 0.46 | 0.41 | 0.22 | 0.45 | 0.34 | 0.089 | 0.191 | 0.237 | 0.298 |
| rs2305421 | Intron 13 | A/g | 0.04 | 0.21 | 0.75 | 0.04 | 0.27 | 0.70 | 0.414 | 0.778 | 0.345 | 0.933 | ||
| β-Secretase | ||||||||||||||
| BACE1 | 11q23-24 | rs573801 | 5' region | G/a | 0.12 | 0.28 | 0.60 | 0.03 | 0.42 | 0.55 | 0.631 | 0.466 | 0.478 | 0.695 |
| rs11601511 | intron 0 | G/c | 0.01 | 0.22 | 0.76 | 0.02 | 0.24 | 0.74 | 0.556 | 0.463 | 0.661 | 0.697 | ||
| rs638405 | exon 5 | C/g | 0.14 | 0.53 | 0.33 | 0.16 | 0.50 | 0.34 | 0.929 | 0.449 | 0.848 | 0.948 | ||
| BACE2 | 21q22.3 | rs734757 | intron 1 | C/t | 0.08 | 0.49 | 0.42 | 0.19 | 0.44 | 0.37 | 0.097 | 0.102 | 0.438 | 0.434 |
| rs12149 | exon 9 | C/t | 0.22 | 0.47 | 0.31 | 0.25 | 0.47 | 0.28 | 0.557 | 0.252 | 0.665 | 0.417 | ||
| γ-Secretase | ||||||||||||||
| PSEN1 | 14q24.3 | rs362344 | 3' region | C/t | 0.05 | 0.35 | 0.60 | 0.05 | 0.35 | 0.60 | 0.999 | 0.900 | 0.970 | 0.956 |
| rs362408 | 3' region | G/a | 0.04 | 0.18 | 0.79 | 0.02 | 0.23 | 0.75 | 0.762 | 0.736 | 0.520 | 0.608 | ||
| PSEN2 | 1q42.2 | rs1295652 | 5' region | A/g | 0.05 | 0.33 | 0.62 | 0.07 | 0.37 | 0.56 | 0.295 | 0.194 | 0.330 | 0.224 |
| rs2802268 | 3' region | T/g | 0.04 | 0.28 | 0.68 | 0.06 | 0.40 | 0.55 | 0.048 | 0.083 | 0.040 | 0.078 | ||
| PEN2 (PSENEN) | 19q13.1 | rs2293688 | intron 2 | C/g | 0.11 | 0.47 | 0.42 | 0.12 | 0.48 | 0.39 | 0.570 | 0.964 | 0.625 | 0.925 |
| NCSTN | 1q22-q23 | rs7540865 | intron 5 | G/t | 0.07 | 0.48 | 0.45 | 0.11 | 0.41 | 0.48 | 0.978 | 0.414 | 0.577 | 0.223 |
| APH1B | 15q22.2 | rs35408871 | Intron 4 | G/a | 0.01 | 0.25 | 0.74 | 0.02 | 0.24 | 0.73 | 0.748 | 0.984 | 0.889 | 0.820 |
| rs2068143 | intron 4 | G/a | 0.16 | 0.35 | 0.48 | 0.07 | 0.34 | 0.60 | 0.020 | 0.081 | 0.088 | 0.152 | ||
Adjusted p-values are based on a logistic regression model with diagnosis as the dependent variable and SNP as a predictor variable along with the covariates gender, age and APOE ε4 status.
P-values < 0.05 are in bold but do not remain significant after adjustment for multiple comparisons.