Table 5. Individual top genes and genetic risk prediction in independent cohorts.
| Gene/SNPs | CFG score |
Mean GRPS |
t-test | |
|---|---|---|---|---|
| Control (n=861) | Alcohol dependence cohort 2 (n=740) | |||
| (A) Test cohort 2 | ||||
| Panel of 11 top genes | ||||
| 66 SNPs | ≥8 | 53.98 | 54.61 | 0.041 |
| SNCA | ||||
| rs7668883 rs17015888 rs17015982 rs6532183 | 13 | 93.93 | 92.84 | 0.086 |
| GFAP | ||||
| rs3744473 rs3169733 rs736866 rs744281 | 9.5 | 63.99 | 64.69 | 0.303 |
| DRD2 | ||||
| rs4648317 rs4938019 | 9 | 13.07 | 15.51 | 0.024 |
| GRM3 | ||||
| rs17160519 rs6944937 rs13236080 rs17315854 rs12668989 rs41440 rs2373124 rs13222675 rs2708553 rs12673599 rs4236502 rs1554888 rs10499898 rs1527769 rs17161018 | 9 | 55.44 | 54.94 | 0.271 |
| MBP | ||||
| rs470131 rs2282566 rs736421 rs1789094 rs9951586 rs1667952 rs1789105 rs1789103 rs1812680 rs1789139 rs4890912 rs9947485 rs1562771 rs1015820 rs1124941 rs11877526 | 8.5 | 44.92 | 47.07 | 0.002 |
| MOBP | ||||
| rs562545 rs2233204 | 8.5 | 49.88 | 49.93 | 0.487 |
| GNAI1 | ||||
| rs4731111 rs6466884 rs7803811 rs17802148 rs7805663 rs10486920 rs2523189 rs2886611 rs2886609 rs12706724 rs4731302 | 8 | 72.97 | 72.71 | 0.393 |
| MOG | ||||
| rs3117292 rs2747442 rs3117294 | 8 | 34.53 | 34.56 | 0.493 |
| RXRG | ||||
| rs10800098 | 8 | 6.04 | 5.27 | 0.174 |
| SYT1 | ||||
| rs1569033 rs10735416 rs1245810 rs1245819 rs1268463 rs1245840 rs10861755 | 8 | 39.16 | 40.89 | 0.113 |
| TIMP2 | ||||
| rs7502935 | 8 | 67.65 | 70.61 | 0.038 |
| Gene/SNPs | CFG score |
Mean GRPS |
t-test |
|||
|---|---|---|---|---|---|---|
| Control (n=1261) | Alcohol dependence cohort 3 (n=2768) | Alcohol abuse cohort 4 (n=600) | Alcohol dependence cohort 3 | Alcohol abuse cohort 4 | ||
| (B) Test cohorts 3 and 4 | ||||||
| Panel of 10 top genes | ||||||
| 34 SNPs | ≥8 | 47.58 | 48.51 | 48.49 | 0.00012 | 0.0094 |
| SNCA | ||||||
| rs17015888 | 13 | 72.28 | 76.96 | 75.58 | 0.000013 | 0.023 |
| GFAP | ||||||
| rs3169733 | 9.5 | 58.92 | 60.38 | 60.17 | 0.042 | 0.158 |
| rs736866 | ||||||
| DRD2 | ||||||
| rs4648317 | 9 | 15.38 | 14.92 | 15.61 | 0.293 | 0.429 |
| GRM3 | ||||||
| rs17160519 | 9 | 35.13 | 37.38 | 35.55 | 0.000061 | 0.309 |
| rs6944937 | ||||||
| rs17315854 | ||||||
| rs4236502 | ||||||
| MBP | ||||||
| rs470131 rs2282566 rs736421 rs1789094 rs9951586 rs1789103 rs4890912 rs9947485 rs1124941 | 8.5 | 47.23 | 48.01 | 48.31 | 0.0443 | 0.059 |
| MOBP | ||||||
| rs562545 rs2233204 | 8.5 | 50.28 | 50.80 | 50.75 | 0.233 | 0.337 |
| GNAI1 | ||||||
| rs4731111 rs6466884 rs17802148 rs10486920 rs2523189 rs2886611 rs2886609 | 8 | 61.58 | 63.03 | 62.87 | 0.006435 | 0.072 |
| MOG | ||||||
| rs3117292 rs2747442 rs3117294 | 8 | 48.78 | 46.44 | 46.08 | 0.020216 | 0.056 |
| RXRG | ||||||
| rs10800098 | 8 | 2.62 | 3.42 | 3.33 | 0.024279 | 0.126 |
| SYT1 | ||||||
| rs1569033 rs1245819 rs1268463 rs10861755 | 8 | 41.56 | 42.48 | 44.25 | 0.11474 | 0.0087 |
Abbreviations: GRPS, Genetic Risk Prediction Score; SNCA, synuclein alpha; SNP, single-nucleotide length polymorphism. Italic, nominally significant; bold italic, survived Bonferroni correction.