Table 2.
Top single nucleotide polymorphisms (SNPs) with main effect on different traits, ranked by P-values.
| Rank | SNP | Chr | Gene | MAF | Beta | Discovery P-value 1 | Replication P-value 1 |
|---|---|---|---|---|---|---|---|
| Primary NUD BIOTYPE | |||||||
| 1 | rs9933173 | 16 | ZFHX3 | 0.068 | 1.951 | 3.9E-04 | 8.8E-01 |
| 2 | rs2538414 | 7 | DPP6 | 0.34 | −0.981 | 7.9E-04 | 6.3E-01 |
| 3 | rs12927436 | 16 | ZFHX3 | 0.057 | −1.907 | 3.5E-03 | 1.1E-02 |
| Mixed NUD/AUD with DE/AX BIOTYPE | |||||||
| 1 | rs1030623 | 2 | THSD7B | 0.106 | −2.080 | 3.1E-04 | 4.2E-01 |
| 2 | rs998288 | 2 | THSD7B | 0.442 | 1.172 | 1.1E-03 | 9.8E-01 |
| 3 | rs974529 | 2 | THSD7B | 0.191 | 1.455 | 2.3E-03 | 4.8E-01 |
| Mixed AUD/NUD BIOTYPE | |||||||
| 1 | rs11646987*+ | 16 | TNRC6A | 0.266 | −0.566 | 7.3E-05 | 4.2E-02 |
| 2 | rs990340 | 2 | THSD7B | 0.448 | 0.493 | 1.2E-04 | 7.7E-01 |
| 3 | rs6497759 | 16 | TNRC6A | 0.196 | −0.580 | 4.4E-04 | 4.3E-02 |
AUD: alcohol use disorder, NUD: nicotine use disorder, DE: depression, AX: anxiety, SNP: single nucleotide polymorphisms, Chr: chromosome, MAF: minor allele frequency.
*
P < 0.05 on training samples in the discovery set (n=594), Linkage-disequilibrium-adjusted and Bonferroni corrected. Wald test.
+
P < 0.05 on samples in the replication set (n=71). Wald test.