Table 2.
The top 20 most associated SNPs organized by minimum P-value at any voxel. The identifier of each SNP is shown with its minor allele frequency (MAF), and the number of subjects in each genotype group (homozygous major allele, Maj; heterozygous, Het; homozygous minor allele, Min). Note that the number of subjects ineach genotype group may not add up to the total number of subjects (740) if data is missing for that SNP in some subjects. The volume of all the voxels where this SNP was the most associated SNP is shown in the Volume (mm3) column. Minimum P-value gives the raw P-value at the most associated voxel where this SNP was a winner. Mean P-value gives the mean P-value of association across all voxels where it is the winning SNP. Additionally, the gene or expressed sequence tag (EST) within 50 kb is shown, where bold typeface indicates that the SNP is located in the gene or EST.
| Chr | Base Pair | SNP | MAF | Number of subjects in genotype groups |
Volume (mm3) | Minimum P-value | Mean P-value | Gene or EST (± 50 kb) | ||
|---|---|---|---|---|---|---|---|---|---|---|
| Maj | Het | Min | ||||||||
| 6q16.2 | 99778735 | rs2132683 | 0.3257 | 340 | 318 | 82 | 4224 | 2.56×10−10 | 1.01×10−6 | |
| 6q15 | 91474473 | rs713155 | 0.3966 | 274 | 345 | 121 | 7296 | 3.11×10−10 | 5.08×10−7 | |
| 1p35.1 | 34020651 | rs476463 | 0.1203 | 567 | 168 | 5 | 1472 | 3.18×10−10 | 1.27×10−6 | CSMD2 |
| 7q31.32 | 121989829 | rs2429582 | 0.3417 | 319 | 331 | 86 | 2496 | 4.23×10−10 | 6.46×10−7 | CADPS2 |
| 3p21.31 | 46314816 | rs9990343 | 0.4811 | 197 | 374 | 169 | 2048 | 5.34×10−10 | 4.41×10−7 | |
| 11q23.3 | 115803577 | rs490592 | 0.2149 | 450 | 255 | 29 | 14528 | 1.39×10−9 | 1.32×10−6 | |
| 20q13.12 | 43557937 | rs11696501 | 0.1935 | 480 | 232 | 27 | 768 | 1.41×10−9 | 8.54×10−7 | WFDC2, SPINT3 |
| 3p12.1 | 84563758 | rs10511089 | 0.1095 | 589 | 140 | 11 | 1664 | 1.79×10−9 | 6.57×10−7 | |
| 8q23.1 | 108858992 | rs4534106 | 0.3007 | 367 | 301 | 72 | 1984 | 2.27×10−9 | 1.00×10−6 | BG436399 |
| 6q12 | 67705937 | rs11970254 | 0.3464 | 293 | 358 | 72 | 1024 | 2.29×10−9 | 6.21×10−7 | |
| 9p13.1 | 38030095 | rs7025303 | 0.4061 | 263 | 347 | 124 | 768 | 2.30×10−9 | 1.21×10−6 | SHB |
| 1p36.13 | 19441559 | rs710865 | 0.3824 | 277 | 354 | 103 | 256 | 2.65×10−9 | 1.10×10−7 | KIAA0090, MRT04, AKR7L |
| 9p13.1 | 38031142 | rs7873102 | 0.3821 | 283 | 340 | 109 | 832 | 2.96×10−9 | 6.42×10−7 | SHB |
| 20p12.1 | 12822585 | rs2073233 | 0.4291 | 234 | 369 | 131 | 2560 | 3.17×10−9 | 1.42×10−6 | BC036700 |
| 2q37.3 | 242151629 | rs12479254 | 0.4049 | 255 | 341 | 119 | 1408 | 3.88×10−9 | 5.70×10−7 | BOK, THAP4 |
| 16p12.1 | 24439219 | rs11643520 | 0.1160 | 574 | 146 | 11 | 1920 | 4.39×10−9 | 6.06×10−7 | RBBP6 |
| 5p12 | 44222425 | rs4296809 | 0.1448 | 539 | 177 | 17 | 12736 | 4.41×10−9 | 8.75×10−7 | BG334794 |
| 13q32.2 | 97764318 | rs688872 | 0.3804 | 283 | 345 | 106 | 3392 | 4.68×10−9 | 1.06×10−6 | FARP1 |
| 14q22.1 | 51080549 | rs7140150 | 0.4566 | 219 | 353 | 160 | 1856 | 5.78×10−9 | 4.77×10−7 | FRMD6 |
| 6p12.3 | 49596867 | rs9473582 | 0.3973 | 274 | 339 | 121 | 4416 | 5.98×10−9 | 8.25×10−7 | GLYATL3 |