Table 1:
Association results of 46 novel alcohol variants identified through the meta-analysis of UK Biobank and AlcGen and CHARGE+. Results are ordered by P-value of combined analysis.
| leadSNP |
Combined |
UKB |
AlcGen and CHARGE+ |
|||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Nearest_Gene | Annotated Gene | rsID_LEAD_SNP | CP | EA | EAF | BETA | SE | P | BETA | SE | P | BETA | SE | P |
| MAPT | STH | rs1991556 | 17:44083402 | A | 0.22 | −0.012 | 0.001 | 4.5E-23 | −0.013 | 0.001 | 2.4E-21 | −0.011 | 0.004 | 4.0E-03 |
| RP11–89K21.1 | SIX3 | rs1004787 | 2:45159091 | A | 0.54 | 0.009 | 0.001 | 6.7E-17 | 0.009 | 0.001 | 1.1E-15 | 0.007 | 0.003 | 1.4E-02 |
| SLC39A8 | SLC39A8 | rs13107325 | 4:103188709 | T | 0.07 | −0.016 | 0.002 | 1.3E-15 | −0.017 | 0.002 | 4.8E-16 | −0.006 | 0.006 | 3.6E-01 |
| IZUMO1, RASIP1, FUT1 | IZUMO1 | rs838145 | 19:49248730 | A | 0.55 | −0.008 | 0.001 | 3.2E-15 | −0.009 | 0.001 | 2.4E-15 | −0.004 | 0.003 | 1.7E-01 |
| Na | PSMD7 | rs1104608 | 16:73912588 | C | 0.43 | −0.008 | 0.001 | 1.2E-14 | −0.009 | 0.001 | 4.9E-15 | −0.003 | 0.003 | 2.5E-01 |
| MYBPC3 | MYBPC3 | rs2071305 | 11:47370957 | A | 0.69 | 0.009 | 0.001 | 4.5E-14 | 0.009 | 0.001 | 3.9E-13 | 0.007 | 0.003 | 3.1E-02 |
| Na | DRD2 | rs7121986 | 11:113355444 | T | 0.37 | −0.008 | 0.001 | 6.2E-14 | −0.008 | 0.001 | 1.3E-13 | −0.005 | 0.003 | 1.1E-01 |
| Na | DPP6 | rs6969458 | 7:153489725 | A | 0.47 | 0.008 | 0.001 | 6.4E-14 | 0.008 | 0.001 | 1.3E-12 | 0.007 | 0.003 | 1.5E-02 |
| RP11–308N19.1 | ZNF462 | rs74424378 | 9:109331094 | T | 0.76 | 0.009 | 0.001 | 1.7E-13 | 0.009 | 0.001 | 4.5E-13 | 0.006 | 0.003 | 8.4E-02 |
| ARHGAP15, AC096558.1, RP11–570L15.2 | ARHGAP15 | rs13024996 | 2:144225215 | A | 0.37 | −0.008 | 0.001 | 4.4E-13 | −0.008 | 0.001 | 6.6E-13 | −0.004 | 0.003 | 1.4E-01 |
| MLXIPL | MLXIPL | rs34060476 | 7:73037956 | A | 0.87 | −0.011 | 0.002 | 5.0E-13 | −0.012 | 0.002 | 1.4E-13 | −0.004 | 0.004 | 4.1E-01 |
| Na | FAM178A | rs61873510 | 10:102626510 | T | 0.33 | −0.008 | 0.001 | 5.1E-13 | −0.008 | 0.001 | 9.8E-12 | −0.008 | 0.003 | 1.7E-02 |
| FTO | FTO | rs1421085 | 16:53800954 | T | 0.60 | 0.008 | 0.001 | 9.2E-13 | 0.007 | 0.001 | 1.7E-10 | 0.010 | 0.003 | 9.2E-04 |
| Na | PMFBP1 | rs11648570 | 16:72356964 | T | 0.89 | −0.012 | 0.002 | 2.1E-12 | −0.011 | 0.002 | 1.5E-10 | −0.013 | 0.005 | 3.4E-03 |
| OTX2, RP11–1085N6.6 | OTX2 | rs2277499 | 14:57271127 | T | 0.34 | −0.008 | 0.001 | 2.2E-12 | −0.007 | 0.001 | 2.4E-09 | −0.012 | 0.003 | 9.1E-05 |
| PDE4B | PDE4B | rs2310752 | 1:66392405 | A | 0.43 | −0.007 | 0.001 | 2.8E-12 | −0.008 | 0.001 | 1.8E-11 | −0.006 | 0.003 | 4.2E-02 |
| SERPINA1 | SERPINA1 | rs112635299 | 14:94838142 | T | 0.02 | −0.025 | 0.004 | 3.7E-12 | −0.027 | 0.004 | 9.8E-12 | −0.017 | 0.010 | 9.9E-02 |
| Na | AJAP1 | rs780569 | 1:4569436 | A | 0.71 | −0.008 | 0.001 | 5.2E-12 | −0.008 | 0.001 | 1.1E-11 | −0.005 | 0.003 | 1.2E-01 |
| Na | VRK2 | rs10496076 | 2:57942987 | T | 0.37 | −0.007 | 0.001 | 9.7E-12 | −0.007 | 0.001 | 1.3E-09 | −0.009 | 0.003 | 1.6E-03 |
| ACTR10, C14orf37 | ACTR10 | rs71414193 | 14:58685301 | A | 0.19 | −0.009 | 0.001 | 1.8E-11 | −0.008 | 0.001 | 5.8E-09 | −0.013 | 0.004 | 4.5E-04 |
| BEND4 | BEND4 | rs16854020 | 4:42117559 | A | 0.13 | 0.010 | 0.002 | 2.9E-11 | 0.010 | 0.002 | 5.8E-09 | 0.016 | 0.005 | 6.4E-04 |
| Na | SORL1 | rs485425 | 11:121544984 | C | 0.45 | −0.007 | 0.001 | 6.1E-11 | −0.007 | 0.001 | 7.3E-11 | −0.004 | 0.003 | 1.9E-01 |
| SEZ6L2 | SEZ6L2 | rs113443718 | 16:29892184 | A | 0.31 | −0.007 | 0.001 | 7.4E-11 | −0.008 | 0.001 | 4.5E-11 | −0.003 | 0.003 | 2.9E-01 |
| CBX5, RP11–968A15.2 | CBX5 | rs57281063 | 12:54660427 | A | 0.41 | 0.007 | 0.001 | 7.9E-11 | 0.007 | 0.001 | 1.8E-09 | 0.007 | 0.003 | 1.2E-02 |
| Na | TNRC6A | rs72768626 | 16:24693048 | A | 0.94 | 0.014 | 0.002 | 9.7E-11 | 0.015 | 0.002 | 1.7E-09 | 0.014 | 0.006 | 1.8E-02 |
| SYT14 | SYT14 | rs227179 | 1:210216731 | A | 0.59 | −0.007 | 0.001 | 1.1E-10 | −0.007 | 0.001 | 1.4E-09 | −0.006 | 0.003 | 2.8E-02 |
| TCF4 | TCF4 | rs9320010 | 18:53053897 | A | 0.60 | 0.007 | 0.001 | 1.1E-10 | 0.007 | 0.001 | 1.6E-09 | 0.007 | 0.003 | 2.2E-02 |
| SBK1 | NPIPB6 | rs2726034 | 16:28336882 | T | 0.68 | 0.007 | 0.001 | 1.4E-10 | 0.007 | 0.001 | 1.1E-09 | 0.006 | 0.003 | 4.7E-02 |
| ANKRD36 | ANKRD36 | rs13390019 | 2:97797680 | T | 0.87 | 0.010 | 0.002 | 1.6E-10 | 0.011 | 0.002 | 7.0E-11 | 0.004 | 0.005 | 4.5E-01 |
| Na | ELAVL4 | rs7517344 | 1:50711961 | A | 0.17 | 0.009 | 0.001 | 1.9E-10 | 0.008 | 0.001 | 2.5E-07 | 0.016 | 0.004 | 2.1E-05 |
| LINC00461 | MEF2C | rs4916723 | 5:87854395 | A | 0.58 | 0.007 | 0.001 | 2.1E-10 | 0.007 | 0.001 | 5.1E-10 | 0.005 | 0.003 | 1.1E-01 |
| ARPC1B, ARPC1A | ARPC1B | rs10249167 | 7:98980879 | A | 0.87 | 0.010 | 0.002 | 2.9E-10 | 0.009 | 0.002 | 8.1E-08 | 0.015 | 0.004 | 3.8E-04 |
| EFNB3, WRAP53 | EFNB3 | rs7640 | 17:7606722 | C | 0.80 | 0.008 | 0.001 | 4.3E-10 | 0.009 | 0.001 | 1.3E-09 | 0.006 | 0.004 | 9.9E-02 |
| RP11–501C14.5 | IGF2BP1 | rs4794015 | 17:47067826 | A | 0.41 | 0.007 | 0.001 | 4.3E-10 | 0.006 | 0.001 | 5.4E-08 | 0.009 | 0.003 | 1.2E-03 |
| TCAP, PNMT, STARD3 | TCAP | rs1053651 | 17:37822311 | A | 0.27 | −0.007 | 0.001 | 1.1E-09 | −0.008 | 0.001 | 8.4E-10 | −0.003 | 0.003 | 2.8E-01 |
| Na | AADAT | rs7698119 | 4:171070910 | A | 0.49 | −0.006 | 0.001 | 1.3E-09 | −0.006 | 0.001 | 1.6E-07 | −0.009 | 0.003 | 1.6E-03 |
| STAT6, AC023237.1 | STAT6 | rs12312693 | 12:57511734 | T | 0.55 | −0.006 | 0.001 | 1.5E-09 | −0.006 | 0.001 | 9.5E-09 | −0.005 | 0.003 | 5.6E-02 |
| SCN8A | SCN8A | rs7958704 | 12:51984349 | T | 0.41 | −0.006 | 0.001 | 1.6E-09 | −0.006 | 0.001 | 1.7E-08 | −0.006 | 0.003 | 3.5E-02 |
| ACSS3 | ACSS3 | rs11114787 | 12:81595700 | T | 0.27 | 0.007 | 0.001 | 2.0E-09 | 0.007 | 0.001 | 2.7E-08 | 0.007 | 0.003 | 2.4E-02 |
| RP11–32K4.1 | BHLHE22 | rs2356369 | 8:64956882 | T | 0.52 | −0.006 | 0.001 | 2.0E-09 | −0.006 | 0.001 | 4.1E-08 | −0.007 | 0.003 | 1.6E-02 |
| ZRANB2-AS2 | ZRANB2 | rs12031875 | 1:71585097 | A | 0.82 | −0.008 | 0.001 | 2.2E-09 | −0.008 | 0.001 | 7.6E-08 | −0.010 | 0.004 | 8.7E-03 |
| MSANTD1, HTT | MSANTD1 | rs12646808 | 4:3249828 | T | 0.66 | 0.007 | 0.001 | 2.4E-09 | 0.007 | 0.001 | 1.1E-09 | 0.002 | 0.003 | 4.7E-01 |
| TENM2 | TENM2 | rs10078588 | 5:166816176 | A | 0.52 | 0.006 | 0.001 | 2.5E-09 | 0.006 | 0.001 | 4.3E-08 | 0.007 | 0.003 | 1.9E-02 |
| IGSF9B | IGSF9B | rs748919 | 11:133783232 | T | 0.79 | 0.008 | 0.001 | 3.3E-09 | 0.008 | 0.001 | 1.0E-08 | 0.005 | 0.003 | 1.1E-01 |
| AC010967.2 | GPR75-ASB3 | rs785293 | 2:53023304 | A | 0.57 | −0.006 | 0.001 | 3.3E-09 | −0.006 | 0.001 | 3.2E-08 | −0.006 | 0.003 | 3.8E-02 |
| BDNF, RP11–587D21.4 | BDNF | rs988748 | 11:27724745 | C | 0.21 | −0.008 | 0.001 | 4.4E-09 | −0.007 | 0.001 | 1.2E-07 | −0.010 | 0.004 | 8.3E-03 |
SNP: Single Nucleotide polymorphism; LocusName: Nearest Gene; rsID_LEAD_SNP: Rs ID number of the lead SNP; CP: Chromosome/Position (build hg19/37); EA: Effect allele of the discovered SNP; EAF: Frequency of the effect allele; BETA_comb: Effect size in meta-analysis; SE_comb; Standard Error of the effect in meta-analysis; P_comb: Meta-analysis P-value; BETA_UKB: Effect size in UK Biobank analysis; SE_UKB: Standard Error of the effect in the UK Biobank analysis; P_UKB: UK Biobank analysis P-value;BETA_AlcGenCHARGE+: Effect size in the AlcGen meta-analysis; SE_AlcGenCHARGE+: Standard Error of the effect in the AlcGen meta-analysis; P_AlcGenCHARGE+: AlcGen meta-analysis P-value