Table 1.
SNPs from known T1D, T2D and autoimmune disease regions with evidence of T1D association, P<0.05, ordered by genomic position
| rs number | Chromosome | Gene region | Parent–child trios | MAF | 1-df P | T1D, T2D or autoimmune |
|---|---|---|---|---|---|---|
| rs6745050 | 2q33 | 2764 | 0.392 | 0.023 | T1D | |
| rs12990970 | 2q33 | 2750 | 0.394 | 0.045 | T1D | |
| rs231727 | 2q33 | CTLA4 | 2763 | 0.359 | 0.00122 | T1D |
| rs10197319 | 2q33 | 2644 | 0.469 | 0.0378 | T1D | |
| rs17268364 | 2q33 | 2756 | 0.459 | 0.0268 | T1D | |
| rs4294983 | 2q33 | 2500 | 0.072 | 0.0278 | T1D | |
| rs12640179 | 4q13 | GC | 886 | 0.078 | 0.0167 | Autoimmune |
| rs16847054 | 4q13 | GC | 1657 | 0.062 | 0.0129 | Autoimmune |
| rs12510683 | 4q27 | 2774 | 0.225 | 0.000713 | T1D | |
| rs6827444 | 4q27 | KIAA1109 | 2726 | 0.181 | 0.0199 | T1D |
| rs12511287 | 4q27 | 2767 | 0.307 | 0.0349 | T1D | |
| rs11567751 | 5p13 | IL7R | 2704 | 0.297 | 0.0147 | Autoimmune |
| rs6897932 | 5p13 | IL7R | 2674 | 0.247 | 0.0424 | Autoimmune |
| rs3194051 | 5p13 | IL7R | 2736 | 0.298 | 0.0196 | Autoimmune |
| rs10214237 | 5p13 | 2751 | 0.246 | 0.0338 | Autoimmune | |
| rs700162 | 5p13 | UGT3A1 | 2563 | 0.402 | 0.0436 | Autoimmune |
| rs2447876 | 5p13 | UGT3A1 | 241 | 0.188 | 0.0302 | Autoimmune |
| rs3792876 | 5q31 | SLC22A4 | 2762 | 0.073 | 0.0157 | Autoimmune |
| rs2073838 | 5q31 | SLC22A4 | 2778 | 0.073 | 0.0196 | Autoimmune |
| rs7739974 | 6p22 | CDKAL1 | 2709 | 0.206 | 0.0195 | T2D |
| rs1569699 | 6p22 | CDKAL1 | 2750 | 0.325 | 0.0195 | T2D |
| rs2206736 | 6p22 | CDKAL1 | 2784 | 0.172 | 0.0174 | T2D |
| rs9356747 | 6p22 | CDKAL1 | 2768 | 0.234 | 0.0356 | T2D |
| rs7741604 | 6p22 | CDKAL1 | 2782 | 0.141 | 0.0208 | T2D |
| rs9465873 | 6p22 | CDKAL1 | 2749 | 0.386 | 0.032 | T2D |
| rs12211466 | 6p22 | CDKAL1 | 557 | 0.062 | 0.00157 | T2D |
| rs7738382 | 6p22 | CDKAL1 | 2752 | 0.281 | 0.0433 | T2D |
| rs11970030 | 6p22 | CDKAL1 | 2765 | 0.124 | 0.04 | T2D |
| rs4712569 | 6p22 | CDKAL1 | 2756 | 0.163 | 0.00371 | T2D |
| rs201351 | 6p22 | CDKAL1 | 2739 | 0.119 | 0.00874 | T2D |
| rs201300 | 6p22 | CDKAL1 | 2765 | 0.387 | 0.0422 | T2D |
| rs4389757 | 6p22 | CDKAL1 | 2763 | 0.125 | 0.00234 | T2D |
| rs9465994 | 6p22 | CDKAL1 | 2764 | 0.473 | 0.0402 | T2D |
| rs4710965 | 6p22 | CDKAL1 | 2690 | 0.462 | 0.0422 | T2D |
| rs6942273 | 6p22 | CDKAL1 | 2755 | 0.44 | 0.0213 | T2D |
| rs4876369 | 8q24 | SLC30A8 | 1646 | 0.153 | 0.00162 | T2D |
| rs10811661 | 9p21 | CDKN2B | 2750 | 0.171 | 0.0182 | T2D |
| rs10876864 | 12q13 | 2691 | 0.449 | 0.00109 | T1D | |
| rs2271194 | 12q13 | ERBB3 | 2653 | 0.447 | 0.00892 | T1D |
| rs705708 | 12q13 | ERBB3 | 2763 | 0.488 | 0.000125 | T1D |
| rs11171747 | 12q13 | 2744 | 0.356 | 7.12E-06 | T1D | |
| rs1678536 | 12q13 | KIF5A | 2756 | 0.278 | 0.00811 | Autoimmune |
| rs2640629 | 12q14 | 2705 | 0.331 | 0.0439 | Autoimmune | |
| rs701008 | 12q14 | AGAP2 | 2742 | 0.353 | 0.00252 | Autoimmune |
| rs2301551 | 12q14 | AGAP2 | 2651 | 0.295 | 0.0253 | Autoimmune |
| rs11172349 | 12q14 | 2722 | 0.307 | 0.0172 | Autoimmune | |
| rs12298022 | 12q24 | C12orf30 | 2759 | 0.077 | 0.00102 | T1D |
| rs17696736 | 12q24 | C12orf30 | 2742 | 0.468 | 0.000618 | T1D |
| rs4767364 | 12q24 | C12orf30 | 2745 | 0.273 | 0.000164 | T1D |
| rs6110460 | 20p13 | DEFB129 | 2669 | 0.47 | 0.0302 | Autoimmune |
| rs729749 | 22Q12 | NCF4 | 2658 | 0.248 | 0.049 | Autoimmune |
MAF, minor allele frequency in unaffected parents; T1D, type I diabetes; T2D, type II diabetes.