Table 2.
Summary of the 73 genomic loci associated with decaffeinated coffee consumption and neuropsychiatric traits in cross-trait meta-analysis.
| Trait | Index SNP | N | CHR | POS | Kb | A1 | A2 | P1 | P2 | P meta |
|---|---|---|---|---|---|---|---|---|---|---|
| AUDIT_T | rs13107325 | 25 | 4 | chr4:102702364..103387094 | 684.731 | C | T | 9.42E-17 | 2.94E-13 | 4.12E-23 |
| AUDIT_C | rs13107325 | 24 | 4 | chr4:102702364..103387094 | 684.731 | C | T | 9.42E-17 | 3.02E-10 | 6.87E-22 |
| AUDIT_P | rs13107325 | 49 | 4 | chr4:102702364..103387094 | 684.731 | C | T | 9.42E-17 | 7.87E-14 | 2.53E-24 |
| rs4371620* | 1 | 4 | chr4:102708235..102708235 | 0.001 | C | T | 3.87E-07 | 5.22E-03 | 4.58E-08 | |
| LCU | rs11214470* | 1 | 11 | chr11:112915628..112915628 | 0.001 | A | G | 1.69E-05 | 3.27E-05 | 3.15E-08 |
| rs12511373* | 1 | 4 | chr4:102666785..102666785 | 0.001 | C | T | 9.24E-07 | 2.74E-03 | 3.12E-08 | |
| rs13107325 | 24 | 4 | chr4:103112470..103374760 | 262.291 | C | T | 9.42E-17 | 1.63E-04 | 1.05E-19 | |
| rs1368740 | 186 | 3 | chr3:85403892..85792137 | 388.246 | A | G | 7.24E-05 | 1.34E-13 | 3.23E-13 | |
| rs9919557 | 8 | 11 | chr11:112827715..112915157 | 87.443 | T | C | 1.52E-03 | 6.53E-11 | 1.37E-10 | |
| MDD | rs10946917 | 65 | 6 | chr6:27375611..27428991 | 53.381 | C | T | 2.42E-04 | 2.61E-10 | 6.42E-13 |
| rs1116690* | 2 | 4 | chr4:143500223..143510148 | 9.926 | A | G | 2.14E-03 | 4.46E-07 | 1.49E-08 | |
| rs12438687* | 2 | 15 | chr15:96955776..96957969 | 2.194 | C | T | 3.86E-03 | 1.99E-07 | 9.20E-09 | |
| rs12631196 | 133 | 3 | chr3:157845169..158171455 | 326.287 | A | G | 9.10E-04 | 3.28E-08 | 4.86E-10 | |
| rs1263674 | 30 | 2 | chr2:208018534..208080975 | 62.442 | T | C | 4.48E-03 | 1.87E-08 | 9.86E-10 | |
| rs12719532* | 2 | 5 | chr5:103795692..103822938 | 27.247 | A | G | 8.90E-03 | 8.11E-08 | 1.02E-08 | |
| rs12967855 | 37 | 18 | chr18:35127427..35251030 | 123.604 | A | G | 4.64E-03 | 1.50E-10 | 1.46E-11 | |
| rs12969553 | 3 | 18 | chr18:52873317..53101904 | 228.588 | C | T | 8.58E-03 | 8.20E-10 | 1.17E-10 | |
| rs13107325 | 11 | 4 | chr4:103112470..103292422 | 179.953 | C | T | 9.42E-17 | 3.88E-03 | 1.89E-16 | |
| rs13353100* | 6 | 13 | chr13:53750354..53827237 | 76.884 | G | T | 8.57E-03 | 2.85E-07 | 2.65E-08 | |
| rs150864553* | 2 | 3 | chr3:88072100..88136305 | 64.206 | C | T | 1.99E-05 | 1.45E-05 | 7.12E-09 | |
| rs166418 | 7 | 9 | chr9:17023857..17029942 | 6.086 | C | T | 7.42E-03 | 9.86E-09 | 1.14E-09 | |
| rs2194028* | 7 | 5 | chr5:87775691..87865365 | 89.675 | C | T | 9.82E-06 | 6.01E-06 | 1.52E-09 | |
| rs2276882* | 5 | 4 | chr4:3196029..3227592 | 31.564 | T | A | 2.37E-03 | 5.01E-07 | 1.18E-08 | |
| rs4649957 | 51 | 1 | chr1:72847620..72951344 | 103.725 | A | T | 6.08E-03 | 7.07E-13 | 1.96E-13 | |
| rs4937872* | 3 | 11 | chr11:112827048..112912518 | 85.471 | A | G | 5.08E-04 | 1.28E-06 | 7.56E-09 | |
| rs557042 | 214 | 6 | chr6:27352750..27854760 | 502.011 | C | T | 5.42E-04 | 3.40E-17 | 5.76E-19 | |
| rs56285315* | 1 | 9 | chr9:17421060..17421060 | 0.001 | A | G | 1.83E-04 | 6.49E-06 | 1.79E-08 | |
| rs62401383 | 57 | 6 | chr6:27318848..27769705 | 450.858 | C | T | 2.05E-04 | 2.81E-11 | 9.91E-14 | |
| rs67777156 | 104 | 6 | chr6:26354100..26824920 | 470.821 | T | A | 1.72E-03 | 4.76E-14 | 2.20E-15 | |
| rs6783233 | 37 | 3 | chr3:117484931..117709493 | 224.563 | C | T | 3.50E-03 | 7.07E-10 | 4.70E-11 | |
| rs67981811 | 182 | 6 | chr6:27854963..28411941 | 556.979 | C | G | 2.08E-03 | 1.14E-18 | 1.71E-19 | |
| rs7147721 | 78 | 14 | chr14:75123374..75377692 | 254.319 | A | G | 2.48E-04 | 2.79E-09 | 1.12E-11 | |
| rs72676198* | 65 | 1 | chr1:67032354..67116043 | 83.69 | C | A | 5.63E-03 | 1.45E-07 | 9.28E-09 | |
| rs72839477 | 58 | 6 | chr6:26828359..27727513 | 899.155 | C | T | 2.40E-03 | 1.17E-15 | 8.71E-17 | |
| rs7428847* | 1 | 3 | chr3:117529467..117529467 | 0.001 | T | C | 3.77E-03 | 1.09E-06 | 4.42E-08 | |
| rs7525662 | 333 | 1 | chr1:73284305..73722460 | 438.156 | A | C | 5.58E-03 | 5.32E-11 | 5.83E-12 | |
| Neuroticism | rs1050847 | 31 | 16 | chr16:87396755..87444253 | 47.499 | C | T | 1.18E-03 | 1.15E-08 | 3.73E-10 |
| rs10759931* | 2 | 9 | chr9:120461621..120464147 | 2.527 | G | A | 5.20E-03 | 2.75E-07 | 3.94E-08 | |
| rs10968658 | 53 | 9 | chr9:28572233..28728183 | 155.951 | A | C | 5.25E-06 | 5.88E-09 | 4.04E-13 | |
| rs11082011 | 75 | 18 | chr18:35127427..35278126 | 150.7 | C | T | 4.66E-03 | 4.44E-21 | 7.16E-21 | |
| rs12438687* | 1 | 15 | chr15:96955776..96955776 | 0.001 | C | T | 3.86E-03 | 1.66E-07 | 1.76E-08 | |
| rs12969553 | 6 | 18 | chr18:52972210..53101904 | 129.695 | C | T | 8.58E-03 | 1.43E-10 | 1.68E-10 | |
| rs13107325 | 11 | 4 | chr4:102702364..103292422 | 590.059 | C | T | 9.42E-17 | 6.51E-04 | 2.04E-16 | |
| rs148696809* | 2 | 6 | chr6:28934352..29244219 | 309.868 | T | C | 1.86E-03 | 2.21E-07 | 9.19E-09 | |
| rs1669025* | 1 | 7 | chr7:137069055..137069055 | 0.001 | A | G | 6.75E-03 | 6.37E-08 | 1.52E-08 | |
| rs17671489* | 3 | 18 | chr18:35241254..35361130 | 119.877 | G | C | 2.87E-03 | 5.80E-07 | 3.59E-08 | |
| rs17692129* | 4 | 17 | chr17:44793283..44848314 | 55.032 | C | T | 2.59E-03 | 5.39E-08 | 3.80E-09 | |
| rs1892350 | 40 | 13 | chr13:68021812..68121129 | 99.318 | A | G | 7.34E-03 | 7.00E-10 | 4.32E-10 | |
| rs200477* | 16 | 6 | chr6:27656090..27769705 | 113.616 | G | A | 5.88E-05 | 1.54E-06 | 1.18E-09 | |
| rs2067919* | 12 | 5 | chr5:87763468..87929869 | 166.402 | T | C | 1.24E-05 | 5.72E-08 | 9.25E-12 | |
| rs2186710 | 135 | 11 | chr11:112809652..112912811 | 103.16 | C | G | 5.09E-04 | 4.89E-12 | 1.84E-13 | |
| rs28732378* | 95 | 3 | chr3:85403892..85784084 | 380.193 | A | G | 9.74E-06 | 1.69E-06 | 2.19E-10 | |
| rs333453 | 20 | 1 | chr1:174623770..174898715 | 274.946 | T | A | 9.20E-03 | 2.84E-09 | 2.00E-09 | |
| rs34728579* | 2 | 18 | chr18:31515643..31610848 | 95.206 | T | C | 1.36E-03 | 9.45E-08 | 2.77E-09 | |
| rs35641442 | 84 | 14 | chr14:75070493..75384471 | 313.979 | G | A | 4.03E-04 | 1.10E-11 | 2.65E-13 | |
| rs36092177* | 12 | 6 | chr6:28349698..28411941 | 62.244 | C | T | 2.09E-03 | 1.27E-07 | 6.08E-09 | |
| rs3785235 | 6 | 16 | chr16:7657673..7667392 | 9.72 | A | G | 7.06E-03 | 9.01E-12 | 1.29E-11 | |
| rs3845980* | 3 | 3 | chr3:157515627..157901346 | 385.72 | T | C | 2.16E-03 | 7.62E-08 | 4.37E-09 | |
| rs4679826* | 1 | 3 | chr3:158066761..158066761 | 0.001 | G | A | 5.13E-03 | 8.64E-08 | 1.36E-08 | |
| rs483143 | 210 | 6 | chr6:27357978..28345282 | 987.305 | G | C | 5.00E-04 | 3.73E-09 | 4.77E-11 | |
| rs57713596 | 25 | 6 | chr6:26903585..27327000 | 423.416 | C | T | 1.17E-03 | 4.49E-08 | 1.20E-09 | |
| rs71566335* | 28 | 6 | chr6:100813469..100872703 | 59.235 | A | G | 1.52E-03 | 1.06E-07 | 3.83E-09 | |
| rs7289932 | 5 | 22 | chr22:41700361..41704872 | 4.512 | A | G | 8.23E-03 | 1.09E-08 | 4.67E-09 | |
| rs73352630* | 3 | 5 | chr5:166061033..166065998 | 4.966 | A | G | 2.83E-03 | 9.47E-08 | 6.89E-09 | |
| rs7772160 | 72 | 6 | chr6:27318848..27736993 | 418.146 | C | T | 7.69E-04 | 2.88E-08 | 4.88E-10 | |
| rs867328* | 3 | 11 | chr11:112913691..112915628 | 1.938 | T | A | 3.33E-06 | 3.18E-05 | 1.89E-09 | |
| rs974711 | 1 | 4 | chr4:90737327..90737327 | 0.001 | G | A | 9.37E-03 | 1.47E-08 | 7.70E-09 | |
| Insomnia | rs12969553* | 1 | 18 | chr18:53101904..53101904 | 0.001 | C | T | 8.58E-03 | 5.85E-08 | 1.19E-08 |
| rs13107325 | 11 | 4 | chr4:102702364..103198082 | 495.719 | C | T | 9.42E-17 | 7.07E-03 | 2.11E-16 | |
| rs2181389 | 66 | 13 | chr13:53677723..53984714 | 306.992 | A | G | 4.85E-03 | 1.09E-10 | 2.73E-11 | |
| rs55969935* | 3 | 11 | chr11:66646365..66650531 | 4.167 | C | T | 1.32E-05 | 4.06E-05 | 1.20E-08 | |
| rs60751869 | 1 | 2 | chr2:66816983..66816983 | 0.001 | G | T | 6.19E-04 | 2.96E-08 | 4.67E-10 | |
| rs9576155 | 5 | 13 | chr13:37527667..37620397 | 92.731 | G | A | 3.44E-03 | 9.26E-09 | 2.23E-09 |
A1, alternative allele; A2, reference allele; P1, decaffeinated coffee consumption P; P2, neuropsychiatric traits P; CHR, chromosome; POS, position of the clumping region on the chromosome; SNP, single nucleotide polymorphism; MDD, major depression disorder; LCU, lifetime cannabis use; SCZ, Schizophrenia; AUDIT_T, Alcohol use disorder identification test total score; AUDIT_C, alcohol consumption component of alcohol use disorder identification test item 1–3 score; AUDIT_P, dependence and hazardous-use component of alcohol use disorder identification test item 4–10 score.
*Not genome-wide significant in single-trait GWAS of both DCC and neuropsychiatric traits.