Table 2.
Genes significantly associated with lifetime cannabis use, as identified in the MAGMA and/or S-PrediXcan analyses
| Locus | Top genes | BP start | BP stop | #SNPs | Z | p-value |
|---|---|---|---|---|---|---|
| 1p36.31 | KLHL21 | 6,640,784 | 6,672,958 | 96 | 4.81 | 7.65e-07 |
| PHF13 | 6,663,756 | 6,694,093 | 84 | 4.61 | 1.99e-06 | |
| 2p12 | LRRTM4 | 76,969,849 | 77,754,502 | 3621 | 5.19 | 1.03e-07 |
| 3p12.1 | CADM2 | 85,003,133 | 86,128,579 | 4287 | 8.96 | 1.59E-19 |
| 4p16.3 | MSANTD1 | 3,240,766 | 3,283,465 | 231 | 4.59 | 2.22e-06 |
| 5q12.3 | HTR1A | 63,245,875 | 63,268,119 | 64 | 4.57 | 2.41e-06 |
| 6p12.1 | BEND6 | 56,814,773 | 56,897,450 | 252 | 5.22 | 2.60e-08 |
| KIAA1586 | 56,906,343 | 56,925,023 | 58 | 5.09 | 1.75e-07 | |
| RAB23 | 57,046,790 | 57,092,112 | 86 | 5.86 | 2.32e-09 | |
| 6q21 | REV3L | 111,610,234 | 111,814,421 | 539 | 4.61 | 1.99e-06 |
| 6q25.3 | ARID1B | 157,093,980 | 157,536,913 | 1344 | 5.59 | 1.15e-08 |
| 8q24.3 | ADGRB1 | 143,535,377 | 143,636,369 | 275 | 4.71 | 1.23e-06 |
| 10q24.32-33 | NEURL | 103,493,890 | 103,592,552 | 17 | 5.22 | 1.83e-07 |
| BORCS7 | 104,603,967 | 104,634,718 | 87 | 4.72 | 1.19e-06 | |
| AS3MT | 104,624,183 | 104,666,656 | 177 | 5.54 | 1.53e-08 | |
| CNNM2 | 104,673,075 | 104,843,344 | 549 | 4.80 | 8.02e-07 | |
| NT5C2 | 104,842,774 | 104,958,063 | 389 | 4.81 | 7.64e-07 | |
| 11q23.2 | NCAM1 | 112,826,969 | 113,154,158 | 1263 | 6.21 | 2.63e-10 |
| 12q24.12 | BRAP | 112,069,950 | 112,133,790 | 97 | 4.87 | 5.48e-07 |
| ACAD10 | 112,118,857 | 112,199,911 | 141 | 5.22 | 8.96e-08 | |
| ALDH2 | 112,199,691 | 112,252,789 | 112 | 4.96 | 3.61e-07 | |
| MAPKAPK5 | 112,275,032 | 112,336,228 | 195 | 4.87 | 5.58e-07 | |
| TMEM116 | 112,364,086 | 112,456,023 | 222 | 4.94 | 3.96E-07 | |
| 16p11.2/16q12.1 | SBK1 | 28,303,840 | 28335170 | 23 | 5.47 | 4.52e-08 |
| NPIPB7 | 28,467,693 | 28481868 | 10 | 5.44 | 5.46e-08 | |
| CLN3 | 28,483,600 | 28,510,897 | 62 | 5.84 | 2.56e-09 | |
| APOBR | 28,500,970 | 28,515,291 | 49 | 5.66 | 7.56e-09 | |
| IL27 | 28,505,683 | 28,523,155 | 57 | 5.66 | 7.48e-09 | |
| CCDC101 | 28,560,249 | 28,608,111 | 181 | 4.90 | 4.87e-07 | |
| SULT1A2 | 28,603,264 | 28,608,391 | 25 | 5.40 | 6.66e-08 | |
| SULT1A1 | 28,605,196 | 28,623,625 | 51 | 5.30 | 1.14e-07 | |
| CDC37P1 | 28,700,176 | 28,701,611 | 31 | 5.26 | 1.42e-07 | |
| EIF3C | 28,722,782 | 28,747,053 | 14 | 5.37 | 8.08-08 | |
| EIF3CL | 28,722,785 | 28,747,053 | 23 | 5.47 | 4.55e-08 | |
| NPIPB9 | 28,742,728 | 28,772,850 | 8 | 5.41 | 6.29e-08 | |
| ATXN2L | 28,829,369 | 28,853,558 | 89 | 5.85 | 2.50e-09 | |
| TUFM | 28,848,732 | 28,862,729 | 55 | 5.83 | 2.83e-09 | |
| SH2B1 | 28,867,939 | 28,890,534 | 71 | 5.72 | 5.46e-09 | |
| ATP2A1 | 28,884,192 | 28,920,830 | 89 | 5.97 | 1.20e-09 | |
| NFATC2IP | 28,962,318 | 28,977,767 | 8 | 5.35 | 8.82e-08 | |
| RABEP2 | 28,910,742 | 28,942,339 | 71 | 5.43 | 2.84e-08 | |
| 17p13.3 | SRR | 2,202,244 | 2,233,553 | 121 | 5.33 | 5.03e-08 |
| TSR1 | 2,220,972 | 2,245,678 | 90 | 5.59 | 1.12e-08 | |
| 18q11.2 | C18orf8 | 21,078,434 | 21,118,311 | 132 | 5.30 | 5.65e-08 |
| NPC1 | 21,081,148 | 21,171,581 | 257 | 5.30 | 5.87e-08 | |
For the gene-based test, the p-value was set at p<2.74e-06, Bonferroni corrected p-value threshold of p<0.05 adjusted for 18,293 tests. For the S-PrediXcan analysis, p< 1.92e-07, Bonferroni corrected p-value threshold of p<0.05 adjusted for 259,825 tests. The MAGMA statistical test is based on multiple regression. Significance was tested two-sided in both analyses. Genes that were significant only in the S-PrediXcan analysis are hightlighted in grey. Location in base pairs (hg19) at beginning and end of gene (BP start/stop), number of SNPs included in the gene (#SNPs), test-statistic for the test of association (Z).
The CDC37P1 gene was significant in two different tissues; information presented here is based on the association with the smallest p-value. For full results, see Supplementary Table S4.