Table II.
Primary (log-additive) model results for CHRN genes containing at least one nominally significant SNP
| rs number |
Chr | Position (bp) |
Gene | Lab1 | SNP function | Risk allele (case allele frequency, control allele frequency) |
Primary p-value |
Odds Ratio (95% CI) | Rank by primary p-value |
LD bin2 |
|---|---|---|---|---|---|---|---|---|---|---|
| CHRND-CHRNG | ||||||||||
|
| ||||||||||
| 3791729 | 2 | 233103541 | CHRND | PSC | INTRON | A (0.365 , 0.318) | 1.299E-03 | 1.25 (1.09 , 1.44) | 30 | 8 |
| 3762528 | 2 | 233104619 | CHRND | PSC | INTRON | G (0.069 , 0.065) | 9.953E-01 | 1 (0.77 , 1.31) | 225 | 111 |
| 12466358 | 2 | 233105769 | CHRND | CIDR | INTRON | C (0.277 , 0.233) | 2.725E-04 | 1.32 (1.14 , 1.54) | 17 | 5 |
| 2767 | 2 | 233108318 | CHRND | PSC | mRNA-UTR | G (0.387 , 0.341) | 1.246E-03 | 1.25 (1.09 , 1.44) | 27 | 8 |
| 2289080 | 2 | 233114422 | CHRNG | PSC | NONSYNON | G (0.981 , 0.978) | 4.838E-01 | 1.18 (0.74 , 1.9) | 166 | 81 |
| 1881492 | 2 | 233115242 | CHRNG | CIDR | INTRON | C (0.82 , 0.777) | 6.945E-04 | 1.33 (1.13 , 1.57) | 23 | 6 |
| 2853462 | 2 | 233115364 | CHRNG | PSC | INTRON | A (0.252 , 0.231) | 1.506E-01 | 1.12 (0.96 , 1.3) | 100 | 39 |
| 6761667 | 2 | 233115655 | CHRNG | CIDR | INTRON | A (0.481 , 0.454) | 6.850E-02 | 1.13 (0.99 , 1.29) | 87 | 29 |
| 2099489 | 2 | 233118538 | CHRNG | PSC | SYNON | G (0.803 , 0.783) | 6.061E-02 | 1.17 (0.99 , 1.38) | 86 | 28 |
| 11690038 | 2 | 233118747 | CHRNG | CIDR | mRNA-UTR | A (0.981 , 0.978) | 5.551E-01 | 1.15 (0.72 , 1.85) | 172 | 81 |
| 6749955 | 2 | 233146161 | PSC | A (0.769 , 0.733) | 1.244E-02 | 1.21 (1.04 , 1.41) | 65 | 19 | ||
| 2276560 | 2 | 233159163 | PSC | A (0.773 , 0.736) | 8.839E-03 | 1.23 (1.05 , 1.43) | 61 | 19 | ||
|
| ||||||||||
| CHRNB3-CHRNA6 | ||||||||||
|
| ||||||||||
| 5005909 | 8 | 42647824 | PSC | INTRON | A (0.838 , 0.801) | 1.976E-03 | 1.3 (1.1 , 1.54) | 37 | 10 | |
| 10958726 | 8 | 42655066 | PSC | INTRON | A (0.809 , 0.761) | 9.636E-05 | 1.38 (1.17 , 1.62) | 5 | 1 | |
| 1530847 | 8 | 42667396 | PSC | INTRON | A (0.865 , 0.83) | 1.257E-03 | 1.36 (1.13 , 1.64) | 28 | 9 | |
| 1955186 | 8 | 42668648 | CIDR | INTRON | C (0.808 , 0.76) | 8.252E-05 | 1.38 (1.18 , 1.63) | 4 | 1 | |
| 1955185 | 8 | 42668804 | PSC | INTRON | A (0.809 , 0.76) | 1.010E-04 | 1.38 (1.17 , 1.62) | 7 | 1 | |
| 13277254 | 8 | 42669139 | PSC | INTRON | A (0.809 , 0.758) | 4.022E-05 | 1.4 (1.19 , 1.65) | 1 | 1 | |
| 13280301 | 8 | 42669174 | PSC | INTRON | G (0.866 , 0.831) | 1.468E-03 | 1.35 (1.12 , 1.63) | 31 | 9 | |
| 13277524 | 8 | 42669214 | PSC | INTRON | A (0.809 , 0.759) | 6.043E-05 | 1.39 (1.18 , 1.64) | 2 | 1 | |
| 6474412 | 8 | 42669655 | PSC | INTRON | A (0.808 , 0.76) | 1.126E-04 | 1.38 (1.17 , 1.62) | 9 | 1 | |
| 6474413 | 8 | 42670221 | PSC | INTRON | A (0.809 , 0.759) | 6.260E-05 | 1.39 (1.18 , 1.64) | 3 | 1 | |
| 4950 | 8 | 42671790 | CHRNB3 | CIDR | mRNA-UTR | A (0.808 , 0.76) | 1.001E-04 | 1.38 (1.17 , 1.62) | 6 | 1 |
| 7838246 | 8 | 42704454 | CHRNB3 | CIDR | INTRON | A (0.967 , 0.952) | 7.582E-03 | 1.59 (1.13 , 2.23) | 60 | 14 |
| 4952 | 8 | 42706222 | CHRNB3 | PSC | SYNON | G (0.968 , 0.952) | 4.128E-03 | 1.64 (1.17 , 2.31) | 48 | 14 |
| 4953 | 8 | 42706816 | CHRNB3 | PSC | SYNON | C (0.968 , 0.952) | 4.055E-03 | 1.64 (1.17 , 2.31) | 47 | 14 |
| 17621256 | 8 | 42709065 | CHRNB3 | CIDR | INTRON | C (0.972 , 0.966) | 3.080E-01 | 1.22 (0.83 , 1.78) | 123 | 59 |
| 7012713 | 8 | 42711460 | CHRNB3 | CIDR | INTRON | A (0.037 , 0.031) | 3.475E-01 | 1.19 (0.83 , 1.72) | 133 | 66 |
| 6987323 | 8 | 42716389 | CIDR | INTRON | G (0.961 , 0.95) | 3.270E-02 | 1.42 (1.03 , 1.96) | 74 | 24 | |
| 9298628 | 8 | 42725148 | PSC | INTRON | G (0.813 , 0.782) | 2.229E-02 | 1.21 (1.03 , 1.43) | 71 | 20 | |
| 9298629 | 8 | 42725343 | PSC | INTRON | C (0.815 , 0.783) | 1.899E-02 | 1.22 (1.03 , 1.44) | 69 | 20 | |
| 2304297 | 8 | 42727356 | CHRNA6 | PSC | mRNA-UTR | G (0.79 , 0.751) | 4.777E-03 | 1.26 (1.07 , 1.47) | 53 | 15 |
| 892413 | 8 | 42733535 | CHRNA6 | PSC | INTRON | C (0.818 , 0.791) | 3.254E-02 | 1.2 (1.02 , 1.42) | 73 | 15 |
| 10087172 | 8 | 42736025 | CHRNA6 | PSC | INTRON | A (0.817 , 0.79) | 3.702E-02 | 1.2 (1.01 , 1.41) | 76 | 15 |
| 2196128 | 8 | 42737443 | CHRNA6 | CIDR | INTRON | A (0.785 , 0.763) | 8.455E-02 | 1.15 (0.98 , 1.35) | 91 | 33 |
| 1072003 | 8 | 42739158 | CHRNA6 | PSC | INTRON | C (0.836 , 0.804) | 8.959E-03 | 1.26 (1.06 , 1.5) | 62 | 20 |
| 7828365 | 8 | 42748471 | PSC | INTRON | G (0.885 , 0.859) | 2.368E-02 | 1.26 (1.03 , 1.54) | 72 | 23 | |
| 10107450 | 8 | 42749052 | CIDR | INTRON | G (0.796 , 0.758) | 4.409E-03 | 1.26 (1.08 , 1.48) | 50 | 15 | |
|
| ||||||||||
| CHRNA5-CHRNA3-CHRNB4 | ||||||||||
|
| ||||||||||
| 17483548 | 15 | 76517368 | IREB2 | PSC | LOCUS | A (0.369 , 0.308) | 1.623E-04 | 1.3 (1.14 , 1.5) | 12 | 3 |
| 17405217 | 15 | 76518204 | IREB2 | CIDR | INTRON | A (0.37 , 0.308) | 1.821E-04 | 1.3 (1.13 , 1.5) | 14 | 3 |
| 924840 | 15 | 76518863 | IREB2 | CIDR | INTRON | A (0.806 , 0.772) | 3.471E-02 | 1.19 (1.01 , 1.4) | 75 | 25 |
| 17483686 | 15 | 76520445 | IREB2 | PSC | INTRON | T (0.373 , 0.314) | 3.205E-04 | 1.29 (1.12 , 1.48) | 19 | 3 |
| 2568488 | 15 | 76523648 | IREB2 | CIDR | INTRON | A (0.806 , 0.773) | 4.372E-02 | 1.18 (1 , 1.39) | 84 | 25 |
| 2656052 | 15 | 76527987 | IREB2 | CIDR | INTRON | C (0.375 , 0.32) | 1.141E-03 | 1.26 (1.09 , 1.44) | 26 | 3 |
| 2656073 | 15 | 76529331 | IREB2 | CIDR | INTRON | C (0.806 , 0.772) | 3.889E-02 | 1.19 (1.01 , 1.39) | 81 | 25 |
| 2958719 | 15 | 76530084 | IREB2 | CIDR | INTRON | A (0.806 , 0.772) | 3.889E-02 | 1.19 (1.01 , 1.39) | 82 | 25 |
| 2656071 | 15 | 76532398 | IREB2 | CIDR | INTRON | T (0.806 , 0.772) | 3.889E-02 | 1.19 (1.01 , 1.39) | 80 | 25 |
| 2656069 | 15 | 76532762 | IREB2 | CIDR | INTRON | A (0.806 , 0.772) | 3.889E-02 | 1.19 (1.01 , 1.39) | 79 | 25 |
| 2568485 | 15 | 76539169 | IREB2 | CIDR | INTRON | A (0.805 , 0.772) | 4.030E-02 | 1.18 (1.01 , 1.39) | 83 | 25 |
| 2568483 | 15 | 76539398 | IREB2 | CIDR | INTRON | A (0.805 , 0.772) | 3.776E-02 | 1.19 (1.01 , 1.4) | 77 | 25 |
| 17484235 | 15 | 76548469 | IREB2 | PSC | INTRON | C (0.37 , 0.308) | 1.244E-04 | 1.31 (1.14 , 1.51) | 10 | 3 |
| 1504549 | 15 | 76553684 | IREB2 | PSC | INTRON | A (0.651 , 0.604) | 6.163E-03 | 1.21 (1.06 , 1.38) | 56 | 17 |
| 7164594 | 15 | 76590112 | LOC123688 | CIDR | INTRON | G (0.807 , 0.763) | 2.848E-03 | 1.28 (1.09 , 1.5) | 43 | 12 |
| 8034191 | 15 | 76593078 | LOC123688 | PSC | INTRON | G (0.381 , 0.323) | 5.836E-04 | 1.27 (1.11 , 1.46) | 22 | 4 |
| 10519203 | 15 | 76601101 | LOC123688 | CIDR | INTRON | G (0.386 , 0.329) | 9.378E-04 | 1.26 (1.1 , 1.44) | 24 | 4 |
| 4461039 | 15 | 76604502 | LOC123688 | CIDR | INTRON | T (0.809 , 0.767) | 4.236E-03 | 1.27 (1.08 , 1.49) | 49 | 7 |
| 2036534 | 15 | 76614003 | CIDR | A (0.81 , 0.768) | 4.555E-03 | 1.27 (1.08 , 1.49) | 51 | 7 | ||
| 12916483 | 15 | 76619452 | PSMA4 | CIDR | LOCUS | G (0.582 , 0.571) | 5.108E-01 | 1.05 (0.91 , 1.2) | 168 | 68 |
| 3813570 | 15 | 76619887 | PSMA4 | CIDR | mRNA-UTR | A (0.81 , 0.767) | 3.589E-03 | 1.27 (1.08 , 1.5) | 44 | 7 |
| 11858230 | 15 | 76622607 | PSMA4 | CIDR | INTRON | G (0.582 , 0.569) | 4.291E-01 | 1.06 (0.92 , 1.21) | 156 | 68 |
| 880395 | 15 | 76631411 | PSC | G (0.581 , 0.568) | 4.274E-01 | 1.06 (0.92 , 1.21) | 155 | 68 | ||
| 7164030 | 15 | 76631716 | PSC | A (0.58 , 0.565) | 3.713E-01 | 1.06 (0.93 , 1.22) | 141 | 68 | ||
| 905739 | 15 | 76632165 | PSC | A (0.812 , 0.766) | 2.131E-03 | 1.29 (1.1 , 1.52) | 39 | 7 | ||
| 2036527 | 15 | 76638670 | CIDR | A (0.387 , 0.324) | 2.233E-04 | 1.29 (1.13 , 1.48) | 16 | 4 | ||
| 503464 | 15 | 76644951 | CHRNA5 | CIDR | LOCUS | A (0.802 , 0.757) | 5.047E-03 | 1.26 (1.07 , 1.47) | 54 | 7 |
| 684513 | 15 | 76645455 | CHRNA5 | CIDR | INTRON | G (0.821 , 0.779) | 5.315E-03 | 1.26 (1.07 , 1.49) | 55 | 7 |
| 667282 | 15 | 76650527 | CHRNA5 | CIDR | INTRON | A (0.807 , 0.759) | 1.258E-03 | 1.3 (1.11 , 1.53) | 29 | 7 |
| 588765 | 15 | 76652480 | CHRNA5 | CIDR | INTRON | G (0.582 , 0.567) | 3.653E-01 | 1.06 (0.93 , 1.21) | 139 | 51 |
| 6495306 | 15 | 76652948 | CHRNA5 | PSC | INTRON | A (0.581 , 0.567) | 4.024E-01 | 1.06 (0.93 , 1.21) | 148 | 51 |
| 17486278 | 15 | 76654537 | CHRNA5 | CIDR | INTRON | C (0.387 , 0.322) | 1.690E-04 | 1.3 (1.13 , 1.49) | 13 | 4 |
| 601079 | 15 | 76656634 | CHRNA5 | PSC | INTRON | T (0.578 , 0.564) | 3.813E-01 | 1.06 (0.93 , 1.21) | 143 | 51 |
| 680244 | 15 | 76658343 | CHRNA5 | CIDR | INTRON | G (0.579 , 0.563) | 3.229E-01 | 1.07 (0.94 , 1.22) | 127 | 51 |
| 621849 | 15 | 76659916 | CHRNA5 | CIDR | INTRON | A (0.58 , 0.564) | 3.632E-01 | 1.06 (0.93 , 1.21) | 138 | 51 |
| 637137 | 15 | 76661031 | CHRNA5 | CIDR | INTRON | A (0.808 , 0.759) | 9.515E-04 | 1.31 (1.12 , 1.54) | 25 | 7 |
| 692780 | 15 | 76663560 | CHRNA5 | CIDR | INTRON | C (0.63 , 0.629) | 8.931E-01 | 1.01 (0.88 , 1.16) | 209 | 96 |
| 11637635 | 15 | 76664205 | CHRNA5 | CIDR | INTRON | G (0.63 , 0.628) | 8.686E-01 | 1.01 (0.88 , 1.16) | 202 | 96 |
| 951266 | 15 | 76665596 | CHRNA5 | CIDR | INTRON | A (0.384 , 0.321) | 2.730E-04 | 1.29 (1.12 , 1.48) | 18 | 4 |
| 555018 | 15 | 76666297 | CHRNA5 | CIDR | INTRON | A (0.582 , 0.567) | 3.593E-01 | 1.06 (0.93 , 1.22) | 136 | 51 |
| 647041 | 15 | 76667536 | CHRNA5 | CIDR | INTRON | G (0.584 , 0.569) | 3.614E-01 | 1.06 (0.93 , 1.22) | 137 | 51 |
| 2229961 | 15 | 76667807 | PSC | A (0.023 , 0.014) | 5.315E-02 | 1.64 (0.99 , 2.77) | 85 | 27 | ||
| 16969968 | 15 | 76669980 | CHRNA5 | PSC | NONSYNON | A (0.383 , 0.318) | 1.298E-04 | 1.31 (1.14 , 1.5) | 11 | 4 |
| 514743 | 15 | 76671282 | CHRNA5 | PSC | INTRON | A (0.629 , 0.629) | 8.950E-01 | 1.01 (0.88 , 1.16) | 211 | 96 |
| 660652 | 15 | 76674887 | CHRNA3 | PSC | mRNA-UTR | G (0.63 , 0.628) | 8.220E-01 | 1.02 (0.89 , 1.17) | 195 | 96 |
| 472054 | 15 | 76675049 | CHRNA3 | PSC | mRNA-UTR | G (0.629 , 0.628) | 8.165E-01 | 1.02 (0.89 , 1.17) | 193 | 96 |
| 578776 | 15 | 76675455 | CHRNA3 | CIDR | mRNA-UTR | G (0.759 , 0.697) | 1.064E-04 | 1.34 (1.16 , 1.56) | 8 | 2 |
| 6495307 | 15 | 76677376 | CHRNA3 | PSC | INTRON | G (0.585 , 0.573) | 4.638E-01 | 1.05 (0.92 , 1.2) | 162 | 51 |
| 1051730 | 15 | 76681394 | CHRNA3 | PSC | SYNON | A (0.382 , 0.318) | 2.007E-04 | 1.3 (1.13 , 1.49) | 15 | 4 |
| 3743078 | 15 | 76681814 | CHRNA3 | CIDR | INTRON | C (0.8 , 0.754) | 2.727E-03 | 1.27 (1.09 , 1.49) | 42 | 7 |
| 3743077 | 15 | 76681951 | CHRNA3 | PSC | INTRON | G (0.584 , 0.569) | 3.292E-01 | 1.07 (0.94 , 1.22) | 130 | 51 |
| 1317286 | 15 | 76683184 | CHRNA3 | CIDR | INTRON | G (0.388 , 0.326) | 3.396E-04 | 1.28 (1.12 , 1.47) | 21 | 4 |
| 938682 | 15 | 76683602 | CHRNA3 | CIDR | INTRON | A (0.806 , 0.759) | 1.839E-03 | 1.29 (1.1 , 1.52) | 32 | 7 |
| 11637630 | 15 | 76686774 | CHRNA3 | CIDR | INTRON | A (0.806 , 0.759) | 1.839E-03 | 1.29 (1.1 , 1.52) | 33 | 7 |
| 7177514 | 15 | 76694461 | CHRNA3 | CIDR | INTRON | C (0.804 , 0.757) | 2.027E-03 | 1.29 (1.1 , 1.51) | 38 | 7 |
| 6495308 | 15 | 76694711 | CHRNA3 | CIDR | INTRON | A (0.804 , 0.757) | 1.858E-03 | 1.29 (1.1 , 1.51) | 34 | 7 |
| 8042059 | 15 | 76694914 | CHRNA3 | CIDR | INTRON | A (0.804 , 0.757) | 1.858E-03 | 1.29 (1.1 , 1.51) | 35 | 7 |
| 8042374 | 15 | 76695087 | CHRNA3 | CIDR | INTRON | A (0.804 , 0.757) | 1.901E-03 | 1.29 (1.1 , 1.51) | 36 | 7 |
| 4887069 | 15 | 76696125 | CHRNA3 | CIDR | INTRON | A (0.801 , 0.753) | 2.144E-03 | 1.28 (1.09 , 1.5) | 40 | 7 |
| 8192479 | 15 | 76696453 | CHRNA3 | PSC | SYNON | A (0.024 , 0.019) | 3.954E-01 | 1.22 (0.77 , 1.95) | 145 | 71 |
| 3743075 | 15 | 76696507 | CHRNA3 | PSC | SYNON | A (0.373 , 0.372) | 9.576E-01 | 1 (0.87 , 1.14) | 221 | 96 |
| 3743074 | 15 | 76696535 | CHRNA3 | PSC | INTRON | G (0.374 , 0.373) | 8.984E-01 | 0.99 (0.86 , 1.14) | 212 | 96 |
| 3743073 | 15 | 76696594 | CHRNA3 | PSC | INTRON | A (0.628 , 0.627) | 8.343E-01 | 1.01 (0.88 , 1.16) | 196 | 96 |
| 8192475 | 15 | 76698285 | CHRNA3 | CIDR | NONSYNON | G (0.954 , 0.941) | 1.197E-01 | 1.26 (0.94 , 1.69) | 94 | 31 |
| 1878399 | 15 | 76699058 | CHRNA3 | CIDR | INTRON | G (0.58 , 0.561) | 2.305E-01 | 1.08 (0.95 , 1.24) | 114 | 51 |
| 6495309 | 15 | 76702300 | CHRNB4 | CIDR | LOCUS | G (0.817 , 0.776) | 6.526E-03 | 1.25 (1.07 , 1.48) | 57 | 7 |
| 1948 | 15 | 76704454 | CHRNB4 | CIDR | mRNA-UTR | G (0.669 , 0.663) | 5.329E-01 | 1.05 (0.91 , 1.2) | 169 | 82 |
| 12914008 | 15 | 76710560 | CHRNB4 | PSC | NONSYNON | G (0.959 , 0.945) | 7.811E-02 | 1.31 (0.97 , 1.78) | 89 | 31 |
| 17487223 | 15 | 76711042 | CHRNB4 | PSC | INTRON | A (0.406 , 0.344) | 3.274E-04 | 1.28 (1.12 , 1.47) | 20 | 4 |
| 950776 | 15 | 76713073 | CHRNB4 | CIDR | INTRON | A (0.661 , 0.654) | 6.469E-01 | 1.03 (0.9 , 1.19) | 183 | 82 |
| 17408858 | 15 | 76713073 | PSC | A (0.66 , 0.655) | 7.019E-01 | 1.03 (0.89 , 1.18) | 186 | 82 | ||
| 12440014 | 15 | 76713781 | CHRNB4 | CIDR | INTRON | C (0.794 , 0.753) | 1.247E-02 | 1.22 (1.04 , 1.43) | 66 | 22 |
| 11636605 | 15 | 76715933 | CHRNB4 | CIDR | INTRON | G (0.83 , 0.791) | 6.562E-03 | 1.27 (1.07 , 1.5) | 58 | 13 |
| 12441998 | 15 | 76716427 | CHRNB4 | CIDR | INTRON | A (0.829 , 0.787) | 3.807E-03 | 1.28 (1.08 , 1.52) | 45 | 13 |
| 1316971 | 15 | 76717565 | CHRNB4 | CIDR | INTRON | G (0.831 , 0.791) | 3.910E-03 | 1.29 (1.08 , 1.53) | 46 | 13 |
| 3813567 | 15 | 76721606 | PSC | A (0.828 , 0.793) | 1.411E-02 | 1.24 (1.04 , 1.47) | 68 | 13 | ||
| 3971872 | 15 | 76729090 | PSC | A (0.09 , 0.08) | 1.976E-01 | 1.17 (0.92 , 1.48) | 109 | 47 | ||
|
| ||||||||||
| CHRNB1 | ||||||||||
|
| ||||||||||
| 4796305 | 17 | 7276779 | PSC | A (0.914 , 0.913) | 8.708E-01 | 1.02 (0.8 , 1.29) | 204 | 101 | ||
| 4151125 | 17 | 7285221 | FGF11 | CIDR | INTRON | G (0.858 , 0.854) | 7.688E-01 | 1.03 (0.85 , 1.24) | 189 | 84 |
| 3829603 | 17 | 7287766 | FGF11 | CIDR | mRNA-UTR | A (0.273 , 0.268) | 2.096E-01 | 1.1 (0.95 , 1.27) | 111 | 48 |
| 17856697 | 17 | 7289349 | CHRNB1 | CIDR | NONSYNON | G (0.388 , 0.364) | 3.152E-01 | 1.07 (0.93 , 1.23) | 125 | 61 |
| 7215056 | 17 | 7290774 | CHRNB1 | PSC | INTRON | C (0.808 , 0.781) | 2.013E-02 | 1.21 (1.03 , 1.43) | 70 | 21 |
| 2302765 | 17 | 7291699 | CHRNB1 | CIDR | INTRON | A (0.861 , 0.854) | 5.525E-01 | 1.06 (0.88 , 1.28) | 171 | 84 |
| 7210231 | 17 | 7298588 | CHRNB1 | PSC | INTRON | C (0.806 , 0.777) | 1.372E-02 | 1.23 (1.04 , 1.45) | 67 | 21 |
| 4796418 | 17 | 7298724 | CHRNB1 | PSC | INTRON | C (0.861 , 0.854) | 5.858E-01 | 1.05 (0.87 , 1.27) | 175 | 84 |
| 2302761 | 17 | 7299244 | CHRNB1 | CIDR | INTRON | G (0.805 , 0.775) | 9.904E-03 | 1.24 (1.05 , 1.46) | 64 | 21 |
| 2302762 | 17 | 7299585 | CHRNB1 | CIDR | INTRON | A (0.278 , 0.271) | 1.985E-01 | 1.1 (0.95 , 1.27) | 110 | 48 |
| 2302764 | 17 | 7300834 | CHRNB1 | PSC | mRNA-UTR | G (0.158 , 0.155) | 3.727E-01 | 1.09 (0.91 , 1.3) | 142 | 69 |
| 3855924 | 17 | 7301047 | CHRNB1 | PSC | mRNA-UTR | A (0.86 , 0.854) | 6.129E-01 | 1.05 (0.87 , 1.27) | 176 | 84 |
| 17732878 | 17 | 7303083 | ZBTB4 | PSC | LOCUS | A (0.804 , 0.775) | 9.540E-03 | 1.24 (1.05 , 1.46) | 63 | 21 |
| 9217 | 17 | 7303812 | ZBTB4 | CIDR | mRNA-UTR | A (0.664 , 0.628) | 7.035E-03 | 1.22 (1.05 , 1.4) | 59 | 18 |
| 9901643 | 17 | 7360548 | CIDR | G (0.865 , 0.859) | 6.283E-01 | 1.05 (0.87 , 1.27) | 181 | 84 | ||
|
| ||||||||||
| CHRNA4 | ||||||||||
|
| ||||||||||
| 4603829 | 20 | 61439336 | PSC | A (0.648 , 0.625) | 1.768E-01 | 1.1 (0.96 , 1.26) | 105 | 43 | ||
| 2236196 | 20 | 61448000 | CHRNA4 | CIDR | mRNA-UTR | G (0.272 , 0.236) | 4.767E-03 | 1.25 (1.07 , 1.45) | 52 | 16 |
| 3787137 | 20 | 61449544 | CHRNA4 | CIDR | INTRON | A (0.57 , 0.566) | 8.940E-01 | 0.99 (0.87 , 1.13) | 210 | 92 |
| 3787138 | 20 | 61449668 | CHRNA4 | PSC | INTRON | G (0.133 , 0.11) | 3.875E-02 | 1.24 (1.01 , 1.52) | 78 | 26 |
| 1044396 | 20 | 61451578 | CHRNA4 | PSC | SYNON | A (0.54 , 0.538) | 7.211E-01 | 0.98 (0.86 , 1.11) | 187 | 92 |
| 2229959 | 20 | 61451998 | CHRNA4 | CIDR | SYNON | C (0.124 , 0.106) | 1.098E-01 | 1.19 (0.96 , 1.46) | 93 | 26 |
| 2273500 | 20 | 61457393 | CHRNA4 | PSC | INTRON | G (0.085 , 0.071) | 8.109E-02 | 1.23 (0.98 , 1.55) | 90 | 32 |
| 2273504 | 20 | 61458505 | CHRNA4 | CIDR | INTRON | G (0.843 , 0.803) | 2.266E-03 | 1.31 (1.1 , 1.55) | 41 | 11 |
| 3787140 | 20 | 61459555 | CHRNA4 | PSC | INTRON | G (0.072 , 0.061) | 9.522E-02 | 1.25 (0.96 , 1.63) | 92 | 32 |
| 755203 | 20 | 61464708 | PSC | A (0.557 , 0.543) | 9.411E-01 | 1.01 (0.88 , 1.15) | 219 | 106 | ||
| 1107953 | 20 | 61471990 | PSC | G (0.524 , 0.513) | 4.023E-01 | 1.06 (0.93 , 1.21) | 147 | 73 | ||
SNPs significant after multiple test correction (p ≤ 0.000462) are indicated with boldface.
1
Genotyping lab: PSC = Perlegen Sciences, CIDR = Center for Inherited Disease Research
2
Bins defined using r2 ≥ 8 after sorting SNPs by significance, as described in the Methods. Bins are numbered by the significance (primary p-value) of the tag.