Table 4.
GABRA2 SNPs allele and genotype frequencies for self-identified EA and AA subjects.
| EA - Connecticut sample | EA - Project Match | AA Subjects | EA vs. AA controls |
|||||||
|---|---|---|---|---|---|---|---|---|---|---|
| SNP rs# location |
† Allele/ genotype |
Controls (n=535) |
AD (n=372) |
aχ2; p-value |
AD (n=727) |
bχ2; p-value |
Controls (n=100) |
AD (n=148) |
cχ2; p-value |
dχ2; p-value |
| rs1440133-7 | G | .607 | .549 | 5.81; | .580 | 1.91 | .773 | .755 | 0.21 | 19.4 |
| GABRA2-50 kb 3′ | A | .393 | .451 | .016 | .420 | .167 | .227 | .245 | .648 | <.001 |
| G/G | .380 | .291 | .324 | .639 | .559 | |||||
| G/A | .453 | .515 | 7.30; | .512 | 4.97 | .268 | .393 | 5.03 | ||
| A/A | .166 | .194 | .026 | .165 | .083 | .093 | .048 | .08 | ||
| rs567926-A | A | .609 | .546 | 6.56; | .575 | 2.94; | .755 | .741 | 0.12 | 14.4 |
| GABRA2-9 kb 3′ | G | .391 | .454 | .010 | .425 | .087 | .245 | .259 | .727 | <.001 |
| A/A | .384 | .302 | .320 | .587 | .532 | |||||
| A/G | .451 | .488 | 6.55; | .510 | 5.88 | .337 | .417 | 1.83 | ||
| G/G | .165 | .210 | .038 | .170 | .053 | .075 | .050 | .40 | ||
| rs534459-B | G | .597 | .534 | 6.81; | .570 | 1.93; | .281 | .303 | 0.27 | 66.9 |
| GABRA2-intron 9 | A | .403 | .466 | .009 | .430 | .165 | .719 | .697 | .601 | <.001 |
| G/G | .365 | .283 | .311 | .112 | .051 | |||||
| G/A | .466 | .503 | 7.03; | .517 | 4.18; | .337 | .504 | 7.76 | ||
| A/A | .170 | .214 | .030 | .172 | .123 | .551 | .445 | .02 | ||
| rs529826-C | T | .600 | .557 | 3.02; | .576 | 1.39; | .279 | .298 | 0.18 | 61.4 |
| GABRA2-intron 8 | C | .400 | .443 | 0.82 | .424 | .238 | .721 | .702 | 0.669 | <.001 |
| T/T | .365 | .306 | .319 | .128 | .050 | |||||
| T/C | .496 | .502 | 3.24; | .514 | 3.09; | .302 | .496 | 10.33 | ||
| C/C | .166 | .192 | .197 | .166 | .213 | .570 | .454 | .006 | ||
| rs279869-D | G | .590 | .536 | 4.91; | .568 | 1.21; | .281 | .292 | 0.08 | 63.8 |
| GABRA2-intron 6 | T | .410 | .464 | .027 | .432 | .272 | .719 | .708 | .782 | <.001 |
| G/G | .357 | .285 | .310 | .112 | .049 | |||||
| G/T | .467 | .503 | 5.23; | .517 | 3.57; | .337 | .486 | 6.96 | ||
| T/T | .176 | .212 | .073 | .174 | .168 | .557 | .465 | .031 | ||
| rs279858-E | T | .598 | .542 | 5.29; | .570 | 2.00; | .760 | .762 | 0.00 | 18.6 |
| GABRA2-exon 5 | C | .402 | .458 | .021 | .430 | .157 | .240 | .236 | .956 | <.001 |
| T/T | .365 | .297 | .312 | .612 | .574 | |||||
| T/C | .465 | .490 | 5.21; | .515 | 4.16; | .296 | .376 | 2.76 | ||
| C/C | .169 | .213 | .074 | .173 | .125 | .092 | .050 | .252 | ||
| rs279844-F | A | .579 | .525 | 4.85; | .546 | 2.67 | .478 | .525 | 0.97 | 6.50 |
| GABRA2-intron 4 | T | .421 | .475 | .028 | .454 | .103 | .522 | .475 | .324 | .011 |
| A/A | .341 | .288 | .284 | .280 | .281 | |||||
| A/T | .476 | .472 | 4.87; | .524 | 4.71; | .398 | .489 | 2.81 | ||
| T/T | .183 | .239 | .088 | .192 | .095 | .323 | .230 | .246 | ||
| rs279837-G | A | .600 | .548 | 4.60; | .568 | 2.67; | .732 | .736 | 0.01 | 12.4 |
| GABRA2-intron 3 | G | .400 | .452 | .032 | .432 | .102 | .268 | .264 | .930 | <.001 |
| A/A | .367 | .301 | .312 | .566 | .535 | |||||
| A/G | .467 | .494 | 4.62; | .512 | 4.19; | .333 | .401 | 1.87 | ||
| G/G | .166 | .205 | .099 | .177 | .123 | .101 | .063 | .393 | ||
| rs9291283-H | G | .744 | .718 | 1.36; | .732 | 0.45 | .693 | .691 | 0.00 | 2.21 |
| GABRA2-intron 3 | A | .256 | .282 | .244 | .268 | .501 | .307 | .309 | .977 | .138 |
| G/G | .558 | .518 | .533 | .479 | .482 | |||||
| A/G | .372 | .399 | 1.35; | .398 | 0.91; | .427 | .418 | .03 | ||
| A/A | .070 | .083 | .510 | .069 | .636 | .094 | .099 | .985 | ||
†
Allele nucleotide designation refers to the chromosome plus strand sequence.
a
EA Controls compared with EA Connecticut Alcoholics
b
EA Controls compared with EA MATCH Alcoholics
c
AA Controls compared with AA Alcoholics (Connecticut and MATCH combined)
d
EA Controls compared with AA Control