Table 1. Association of CHRNA5 total mRNA expression with variants within and flanking the CHRNA5 gene.
| SNP | chr 15 position (build 37) | Gene | Minor allele | Frontal cortex of European ancestry (PMI as a covariate) | Frontal cortex of African ancestry (PMI as a covariate) | ||||||
| N | BETA | STAT | P | N | BETA | STAT | P | ||||
| rs12916483 | 78832397 | −358 bp relative to AUG of PSMA4 | A | 93 | 0.66 | 8.3 | 9.92E-13 | 47 | 0.36 | 2.51 | 1.58E-02 |
| rs4886571 | 78833758 | intronic region of PSMA4 | G | 93 | 0.64 | 8.06 | 3.04E-12 | 47 | 0.6 | 4.72 | 2.40E-05 |
| rs11858230 | 78835552 | intronic region of PSMA4 | A | 93 | 0.64 | 8.01 | 3.88E-12 | 46 | 0.63 | 5 | 1.02E-05 |
| rs8025429 | 78836362 | intronic region of PSMA4 | G | 90 | 0.69 | 8.77 | 1.31E-13 | 45 | 0.63 | 4.99 | 1.12E-05 |
| rs4887062 | 78837801 | intronic region of PSMA4 | G | 94 | 0.64 | 8.18 | 1.60E-12 | 47 | 0.63 | 5.14 | 6.10E-06 |
| rs8053 | 78841220 | Exon 9 of PSMA4 | T | 93 | 0.64 | 8.01 | 3.87E-12 | 47 | 0.67 | 5.77 | 7.27E-07 |
| rs1979907 | 78842239 | −15.6 kb relative to AUG of CHRNA5 | T | 94 | 0.64 | 8.18 | 1.60E-12 | 47 | 0.67 | 5.77 | 7.27E-07 |
| rs1979906 | 78842289 | −15.6 kb relative to AUG of CHRNA5 | C | 94 | 0.64 | 8.18 | 1.60E-12 | 45 | 0.66 | 5.54 | 1.85E-06 |
| rs1979905 | 78842374 | −15.5 kb relative to AUG of CHRNA5 | A | 94 | 0.64 | 8.18 | 1.60E-12 | 47 | 0.67 | 5.77 | 7.27E-07 |
| rs12907966 | 78843051 | −14.8 kb relative to AUG of CHRNA5 | T | 93 | 0.66 | 8.42 | 5.57E-13 | 44 | not polymorphic | ||
| rs880395 | 78844356 | −13.5 kb relative to AUG of CHRNA5 | A | 94 | 0.64 | 8.18 | 1.60E-12 | 47 | 0.67 | 5.77 | 7.27E-07 |
| rs905740 | 78844386 | −13.5 kb relative to AUG of CHRNA5 | T | 94 | 0.64 | 8.18 | 1.60E-12 | 47 | 0.67 | 5.77 | 7.27E-07 |
| rs7164030 | 78844661 | −13.2 kb relative to AUG of CHRNA5 | G | 92 | 0.64 | 8.06 | 3.21E-12 | 46 | 0.68 | 5.78 | 7.65E-07 |
| rs4275821 | 78849541 | −8.3 kb relative to AUG of CHRNA5 | C | 91 | 0.54 | 5.72 | 1.46E-07 | 47 | 0.61 | 5.21 | 4.84E-06 |
| rs3841324 | 78857813 | promoter region of CHRNA5 | S | 94 | 0.68 | 8.45 | 4.48E-13 | 47 | 0.39 | 2.83 | 6.94E-03 |
| rs55853698 | 78857939 | 5′UTR of CHRNA5 | G | 92 | −0.33 | −3.34 | 1.22E-03 | 47 | −0.12 | −0.8 | 4.29E-01 |
| rs588765 | 78865425 | intronic region of CHRNA5 | T | 93 | 0.58 | 7.08 | 3.11E-10 | 47 | 0.54 | 4.25 | 1.10E-04 |
| rs601079 | 78869579 | intronic region of CHRNA5 | T | 92 | 0.58 | 7.1 | 2.89E-10 | 47 | 0.46 | 3.51 | 1.04E-03 |
| rs16969968 | 78882925 | Exon 5 of CHRNA5 | A | 94 | −0.26 | −2.64 | 9.83E-03 | 47 | −0.11 | −0.75 | 4.57E-01 |
| rs615470 | 78885988 | 3′UTR of CHRNA5 | T | 94 | 0.4 | 4.36 | 3.40E-05 | 47 | 0.43 | 3.13 | 3.07E-03 |
| rs578776 | 78888400 | 3′UTR of CHRNA3 | A | 92 | −0.25 | −2.04 | 4.40E-02 | 47 | 0.38 | 2.78 | 7.99E-03 |
| rs3743078 | 78894759 | intronic region of CHRNA3 | C | 94 | −0.46 | −4.03 | 1.16E-04 | 47 | 0.36 | 2.62 | 1.21E-02 |
| rs6495308 | 78907656 | intronic region of CHRNA3 | C | 93 | −0.45 | −3.92 | 1.73E-04 | 47 | −0.35 | −2.54 | 1.45E-02 |
*Bolded beta values indicate variants with significant association between minor alleles and increased mRNA expression.