Table 1 Characteristics of SNP markers genotyped for 13 candidate genes showing significant evidence of linkage in the presence of LD in 58 case‐parent trios.
| Gene (region) | SNP | Physical location* | Distance (bp) | HET† | HWE‡ (p) | r2\D′§ | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| M1 | M2 | M3 | M4 | M5 | M6 | M7 | M8 | M9 | M10 | M11 | M12 | M13 | ||||||
| SP100 | rs890674 | 231105656 | – | 0.28 | 0.67 | – | 0.45 | 0.07 | 0.18 | 0.07 | ||||||||
| (2q37.1) | rs1678203 | 231154555 | 48 899 | 0.50 | 0.89 | 0.03 | – | 0.66 | 0.78 | 0.38 | ||||||||
| rs1678158 | 231189295 | 34 740 | 0.32 | 0.87 | 0.00 | 0.22 | – | 1.00 | 1.00 | |||||||||
| rs33079 | 231200123 | 10 828 | 0.22 | 0.57 | 0.00 | 0.04 | 0.03 | – | 0.88 | |||||||||
| rs890669 | 231210736 | 10 613 | 0.47 | 0.63 | 0.00 | 0.08 | 0.26 | 0.10 | – | |||||||||
| MLPH | rs880931 | 238178741 | – | 0.26 | 0.97 | – | 0.95 | 0.79 | ||||||||||
| (2q37.3) | rs1463795 | 238194392 | 15 651 | 0.37 | 0.57 | 0.46 | – | 0.08 | ||||||||||
| rs8260 | 238244324 | 49 932 | 0.26 | 0.03 | 0.03 | 0.00 | – | |||||||||||
| HDAC4 | rs1466094 | 239694849 | – | 0.47 | 0.65 | – | 0.86 | 0.08 | 0.05 | 0.19 | 0.08 | 0.26 | 0.12 | 0.06 | 0.06 | 0.20 | 0.01 | 0.18 |
| (2q37.2) | rs1055333 | 239706228 | 11 379 | 0.37 | 0.89 | 0.52 | – | 0.05 | 0.78 | 1.00 | 0.12 | 0.09 | 0.03 | 0.15 | 0.15 | 0.07 | 0.07 | 0.17 |
| rs2121980 | 239791807 | 85 579 | 0.48 | 0.85 | 0.00 | 0.00 | – | 0.79 | 0.57 | 0.29 | 0.15 | 0.10 | 0.43 | 0.43 | 0.10 | 0.17 | 0.68 | |
| rs2100171 | 239805757 | 13 950 | 0.23 | 1.00 | 0.00 | 0.03 | 0.19 | – | 0.79 | 0.42 | 0.38 | 1.00 | 1.00 | 1.00 | 0.53 | 0.23 | 0.26 | |
| rs686606 | 239837349 | 31 592 | 0.16 | 0.35 | 0.01 | 0.04 | 0.06 | 0.40 | – | 1.00 | 0.69 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 0.62 | |
| rs1962113 | 239844371 | 7022 | 0.33 | 0.02 | 0.01 | 0.01 | 0.07 | 0.01 | 0.05 | – | 0.03 | 0.64 | 0.54 | 0.54 | 0.31 | 0.21 | 0.16 | |
| rs291329 | 239880676 | 36 305 | 0.49 | 1.00 | 0.06 | 0.00 | 0.02 | 0.04 | 0.09 | 0.00 | – | 0.91 | 0.89 | 0.89 | 0.26 | 0.02 | 0.30 | |
| rs1015458 | 239892906 | 12 230 | 0.23 | 1.00 | 0.00 | 0.00 | 0.00 | 0.02 | 0.01 | 0.03 | 0.19 | – | 1.00 | 1.00 | 0.10 | 0.22 | 0.22 | |
| rs1403607 | 239912287 | 19 381 | 0.20 | 1.00 | 0.00 | 0.01 | 0.01 | 0.02 | 0.01 | 0.01 | 0.14 | 0.80 | – | 1.00 | 0.09 | 0.24 | 0.24 | |
| rs1403608 | 239918126 | 5839 | 0.20 | 1.00 | 0.00 | 0.01 | 0.01 | 0.02 | 0.01 | 0.01 | 0.14 | 0.80 | 1.00 | – | 0.09 | 0.24 | 0.24 | |
| rs2018414 | 239995925 | 77 799 | 0.39 | 0.41 | 0.01 | 0.00 | 0.01 | 0.02 | 0.05 | 0.09 | 0.02 | 0.00 | 0.09 | 0.00 | – | 0.83 | 0.83 | |
| rs2176046 | 240031867 | 35 942 | 0.17 | 1.00 | 0.00 | 0.00 | 0.01 | 0.00 | 0.01 | 0.01 | 0.00 | 0.04 | 0.24 | 0.06 | 0.18 | – | 1.00 | |
| rs925736 | 240039566 | 7699 | 0.44 | 1.00 | 0.01 | 0.00 | 0.10 | 0.00 | 0.02 | 0.00 | 0.02 | 0.00 | 0.24 | 0.00 | 0.00 | 0.05 | – | |
| ADH1C | rs1614972 | 100615333 | – | 0.39 | 0.30 | – | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | ||||||
| (4q22) | rs1662058 | 100619937 | 4604 | 0.53 | 0.56 | 0.32 | – | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | ||||||
| rs904096 | 100620762 | 825 | 0.53 | 0.54 | 0.31 | 1.00 | – | 1.00 | 1.00 | 1.00 | 1.00 | |||||||
| rs1789911 | 100620956 | 194 | 0.53 | 0.54 | 0.31 | 1.00 | 1.00 | – | 1.00 | 1.00 | 1.00 | |||||||
| rs1693482 | 100621143 | 187 | 0.53 | 0.54 | 0.31 | 1.00 | 1.00 | 1.00 | – | 1.00 | 1.00 | |||||||
| rs1662051 | 100624417 | 3274 | 0.53 | 0.54 | 0.31 | 1.00 | 1.00 | 1.00 | 1.00 | – | 1.00 | |||||||
| rs980972 | 100636425 | 12 008 | 0.52 | 0.61 | 0.32 | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | – | |||||||
| LEF1 | rs1291490 | 109351616 | – | 0.20 | 1.00 | – | 1.00 | 1.00 | 1.00 | 1.00 | 1.00 | |||||||
| (4q23–25) | rs898518 | 109374428 | 22 812 | 0.49 | 0.34 | 0.10 | – | 1.00 | 1.00 | 0.95 | 1.00 | |||||||
| rs744369 | 109383839 | 9411 | 0.50 | 0.53 | 0.10 | 0.98 | – | 1.00 | 0.98 | 1.00 | ||||||||
| rs1460405 | 109397188 | 13 349 | 0.13 | 1.00 | 0.01 | 0.07 | 0.08 | – | 1.00 | 1.00 | ||||||||
| rs956237 | 109404564 | 7376 | 0.49 | 0.51 | 0.12 | 0.79 | 0.81 | 0.07 | – | 1.00 | ||||||||
| rs922168 | 109415008 | 10 444 | 0.35 | 0.08 | 0.05 | 0.50 | 0.51 | 0.02 | 0.43 | – | ||||||||
| C6orf105 | rs210910 | 11826113 | – | 0.31 | 0.08 | – | 1.00 | 1.00 | ||||||||||
| (6p24.1) | rs210903 | 11832528 | 6415 | 0.36 | 0.35 | 0.70 | – | 0.74 | ||||||||||
| rs210895 | 11839849 | 7321 | 0.40 | 0.03 | 0.70 | 0.55 | – | |||||||||||
| CD44 | rs353612 | 35136227 | – | 0.29 | 0.45 | – | 0.92 | 0.16 | 0.15 | |||||||||
| (11pter‐p13) | rs353636 | 35141306 | 5079 | 0.34 | 0.45 | 0.70 | – | 0.37 | 0.32 | |||||||||
| rs713330 | 35180521 | 39 215 | 0.40 | 1.00 | 0.00 | 0.00 | – | 0.07 | ||||||||||
| rs13347 | 35209848 | 68 542 | 0.27 | 1.00 | 0.00 | 0.02 | 0.00 | – | ||||||||||
| ALX4 | rs729287 | 44236666 | – | 0.50 | 1.00 | – | 0.08 | 0.50 | ||||||||||
| (11p11.2) | rs879238 | 44258914 | 22 248 | 0.48 | 0.70 | 0.00 | – | 0.24 | ||||||||||
| rs1869480 | 44276233 | 17 319 | 0.15 | 1.00 | 0.06 | 0.22 | 0.00 | |||||||||||
| SCN3B | rs2027767 | 123005969 | – | 0.33 | 0.23 | – | 0.18 | 0.10 | 1.00 | 0.17 | 0.17 | 0.17 | 0.06 | |||||
| (11q24.1) | rs1274205 | 123013111 | 7142 | 0.21 | 1.00 | 0.02 | – | 1.00 | 0.88 | 0.01 | 0.01 | 0.01 | 0.32 | |||||
| rs1783901 | 123018716 | 5605 | 0.30 | 0.43 | 0.01 | 0.04 | – | 1 | 0.65 | 0.65 | 0.65 | 0.74 | ||||||
| rs1148107 | 123020997 | 2281 | 0.08 | 1.00 | 0.01 | 0.29 | 0.01 | – | 1.00 | 1.00 | 1.00 | 0.85 | ||||||
| rs1720340 | 123024127 | 3130 | 0.21 | 1.00 | 0.02 | 0.00 | 0.24 | 0.01 | – | 1.00 | 1.00 | 1.00 | ||||||
| rs1783902 | 123025214 | 1087 | 0.21 | 1.00 | 0.02 | 0.00 | 0.24 | 0.01 | 1.00 | – | 1.00 | 1.00 | ||||||
| rs1720328 | 123026420 | 1206 | 0.21 | 1.00 | 0.02 | 0.00 | 0.24 | 0.01 | 1.00 | 1.00 | – | 1.00 | ||||||
| rs1148085 | 123032279 | 5859 | 0.39 | 0.87 | 0.00 | 0.05 | 0.05 | 0.12 | 0.05 | 0.05 | 0.05 | – | ||||||
| ZNF202 | rs558021 | 123090819 | – | 0.44 | 0.26 | – | 1.00 | 1.00 | 1.00 | |||||||||
| (11q23.3) | rs481168 | 123099450 | 8631 | 0.04 | 1.00 | 0.03 | – | 1.00 | 1.00 | |||||||||
| rs10904 | 123101265 | 1815 | 0.43 | 0.39 | 0.29 | 0.01 | – | 1.00 | ||||||||||
| rs679597 | 123103014 | 1749 | 0.34 | 0.40 | 0.73 | 0.06 | 0.21 | – | ||||||||||
| CRHR1 | rs171441 | 41249125 | – | 0.15 | 0.39 | – | 1.00 | 0.95 | 0.89 | 0.77 | 0.93 | |||||||
| (17q12–22) | rs242937 | 41254149 | 5024 | 0.56 | 0.24 | 0.15 | – | 1.00 | 1.00 | 0.78 | 0.86 | |||||||
| rs242936 | 41254990 | 841 | 0.20 | 0.93 | 0.81 | 0.17 | – | 1.00 | 0.80 | 0.94 | ||||||||
| rs242950 | 41266434 | 11 444 | 0.20 | 0.83 | 0.75 | 0.16 | 0.95 | – | 0.78 | 1.00 | ||||||||
| rs878887 | 41268363 | 1929 | 0.37 | 0.91 | 0.02 | 0.17 | 0.03 | 0.03 | – | 0.87 | ||||||||
| IMP5 | rs242943 | 41280192 | 11 829 | 0.32 | 0.60 | 0.42 | 0.21 | 0.48 | 0.52 | 0.06 | – | |||||||
| (17q21.31) | rs962885 | 41291420 | 11 228 | 0.42 | 0.49 | – | 1.00 | 1.00 | 0.89 | 1.00 | 0.88 | 1.00 | 1.00 | 1.00 | ||||
| MAPT | rs916793 | 41310477 | 19 057 | 0.37 | 0.91 | 0.17 | – | 1.00 | 1.00 | 1.00 | 0.90 | 1.00 | 1.00 | 1.00 | ||||
| (17q21.1) | rs1864325 | 41333623 | 23 146 | 0.37 | 0.91 | 0.17 | 1.00 | – | 1.00 | 1.00 | 0.90 | 1.00 | 1.00 | 1.00 | ||||
| rs1467967 | 41342006 | 8383 | 0.46 | 0.63 | 0.72 | 0.16 | 0.16 | – | 1.00 | 0.93 | 1.00 | 1.00 | 1.00 | |||||
| rs1467970 | 41354402 | 12 396 | 0.37 | 0.97 | 0.18 | 1.00 | 1.00 | 0.17 | – | 0.90 | 1.00 | 1.00 | 1.00 | |||||
| rs242556 | 41358078 | 3676 | 0.34 | 0.32 | 0.42 | 0.08 | 0.08 | 0.51 | 0.08 | – | 0.90 | 0.90 | 0.90 | |||||
| rs754512 | 41411483 | 53 405 | 0.37 | 0.91 | 0.17 | 1.00 | 1.00 | 0.16 | 1.00 | 0.08 | – | 1.00 | 1.00 | |||||
| rs1052553 | 41429726 | 18 243 | 0.37 | 0.91 | 0.17 | 1.00 | 1.00 | 0.16 | 1.00 | 0.08 | 1.00 | – | 1.00 | |||||
| rs9468 | 41457408 | 27 682 | 0.37 | 0.91 | 0.17 | 1.00 | 1.00 | 0.16 | 1.00 | 0.08 | 1.00 | 1.00 | – | |||||
*Physical location determined based on Build 35; †observed heterozygosity; ‡p value for test of Hardy‐Weinberg equilibrium; §two measures of pair‐wise LD: D′ is above the diagonal, r2 is below the diagonal, M1–M13 (from the first SNP marker).