Genome-wide significant signals associated with LADA
| SNP | Chromosome | Position (b37) | Reference/other allele | Effect allele frequency (case/control subjects) | OR | 95% CI | P | Gene |
|---|---|---|---|---|---|---|---|---|
| LADA (n = 2,634) vs. population control subjects (n = 5,947) | ||||||||
| rs9273368 | 6 | 32626475 | A/G | 0.50/0.28 | 3.115 | 2.855–3.398 | 7.87 × 10−143 | HLA-DQB1 |
| rs2476601 | 1 | 114377568 | A/G | 0.159/0.102 | 1.717 | 1.539–1.915 | 7.21 × 10−22 | PTPN22 |
| rs689 | 11 | 2182224 | T/A | 0.802/0.726 | 1.483 | 1.363–1.613 | 1.07 × 10−19 | INS |
| rs7310615 | 12 | 111865049 | C/G | 0.553/0.492 | 1.284 | 1.193–1.383 | 4.92 × 10−11 | SH2B3 |
| LADA (n = 2,779) vs. case subjects with type 2 diabetes (n = 10,396) | ||||||||
| rs9273368 | 6 | 32626475 | A/G | 0.43/0.301 | 2.439 | 2.222–2.676 | 3.17 × 10−78 | HLA-DQB1 |
| rs689 | 11 | 2182224 | T/A | 0.783/0.715 | 1.473 | 1.352–1.605 | 9.86 × 10−19 | INS |
| rs2476601 | 1 | 114377568 | A/G | 0.173/0.140 | 1.529 | 1.38–1.693 | 4.52 × 10−16 | PTPN22 |
| rs3184504 | 12 | 111884608 | C/T | 0.544/0.52 | 1.24 | 1.151–1.336 | 1.77 × 10−8 | SH2B3 |
| LADA (n = 2,454) vs. case subjects with type 1 diabetes (n = 968) | ||||||||
| rs9273368 | 6 | 32626475 | A/G | 0.415/0.65 | 0.335 | 0.256–0.385 | 8.46 × 10−40 | HLA-DQB1 |
We performed three genome-wide association approaches, first for LADA vs. population control subjects (top), then for LADA vs. type 2 diabetes (middle), and finally for LADA versus type 1 diabetes (bottom). ORs are given for the LADA risk allele, except for rs9273368 in LADA vs. type 1 diabetes, to illustrate that the type 1 diabetes risk allele was depleted in LADA.