Table 2.
Results of single variant analysis.
| Model 1 | Model 2 | |||||||
|---|---|---|---|---|---|---|---|---|
| Closest gene | Marker | dbSNP | Reference/effect allele | AF | OR (95% CI) | p value | OR (95% CI) | p value |
| Novel loci | ||||||||
| AL392172.2 | 1:222779085 | rs4240935 | G/T | 0.39 | 1.76 (1.39–2.22) | 2.2 × 10−6 | 1.82 (1.43–2.31) | 9.5 × 10−7 |
| AC097655.1 | 4:60211881 | rs11131227 | A/C | 0.30 | 0.5 (0.66–0.38) | 6 × 10−7 | 0.51 (0.67–0.38) | 1.6 × 10−6 |
| AKR1C2 | 10:5008180 | rs11252881 | T/A | 0.50 | 0.54 (0.68–0.42) | 2.1 × 10−7 | 0.56 (0.71–0.44) | 1.7 × 10−6 |
| SLC38A1 | 12:46230329 | rs11183403 | A/C | 0.34 | 1.78 (1.41–2.25) | 1 × 10−6 | 1.78 (1.41–2.25) | 1.7 × 10−6 |
| SCN8A | 12:51658428 | rs7953996 | G/A | 0.20 | 1.98 (2.59–1.51) | 6 × 10−7 | 2.03 (2.67–1.54) | 4.1 × 10−7 |
| HAR1A | 20:63109757 | rs112918561 | T/TTG | 0.16 | 2.04 (1.54–2.72) | 9.1 × 10−7 | 2.14 (1.6–2.86) | 2.3 × 10−7 |
| AD-Known Loci | ||||||||
| RASGEF1C | 5:180201150 | rs113706587 | G/A | 0.11 | 1.41 (1.02–1.96) | 0.040 | 1.43 (1.02–2.01) | 0.036 |
| TREM2 | 6:41161469 | rs143332484 | C/T | 0.008 | 3.76 (1.58–8.95) | 0.003 | 4.18 (1.74–10.01) | 0.001 |
| SEC61G | 7:54873635 | rs76928645 | C/T | 0.09 | 0.62 (0.41–0.94) | 0.025 | 0.64 (0.42–0.99) | 0.045 |
| CLU | 8:27607795 | rs11787077 | C/T | 0.42 | 0.76 (0.95–0.61) | 0.016 | 0.78 (0.99–0.62) | 0.037 |
| ANK3 | 10:60025170 | rs7068231 | G/T | 0.46 | 0.8 (1–0.64) | 0.048 | 0.8 (1.01–0.64) | 0.062 |
| SORL1 | 11:121482368 | rs74685827 | T/G | 0.002 | 4.64 (1.08–19.86) | 0.039 | 3.16 (0.85–11.78) | 0.086 |
| FERMT2 | 14:52924962 | rs17125924 | A/G | 0.08 | 1.7 (1.2–2.42) | 0.003 | 1.78 (1.24–2.56) | 0.002 |
| PRDM7 | 16:90103687 | rs56407236 | G/A | 0.05 | 1.89 (1.18–3.03) | 0.008 | 1.73 (1.07–2.81) | 0.026 |
| GRN | 17:44352876 | rs5848 | C/T | 0.35 | 1.28 (1.01–1.62) | 0.043 | 1.28 (1.01–1.63) | 0.044 |
| ABCA7 | 19:1050421 | rs115550680 | A/G | 0.005 | 3.16 (1.14–8.78) | 0.027 | 3.62 (1.3–10.07) | 0.013 |
| APOE | 19:44908684 | rs429358 | T/C | 0.13 | 2.19 (1.64–2.93) | 1.3 × 10−7 | 1.69 (0.29–10) | 0.563 |
Allele frequency (AF) in the table reflects the effect allele frequency in the controls. The AD-Known markers are the same SNPs identified in the AF (Kunkle et al., 2021) and NHW (Bellenguez et al., 2022) GWASs.