Autoantibody associations at published T1D associated loci.

Tests of 64 confirmed T1D susceptibility SNPs (located in 52 distinct chromosome regions, see www.t1dbase.org) for autoantibody association (p≤0.01, false discovery rate 16%). SNPs without any positive autoantibody association are not shown. The full JDRF/WT T1D case-control collection was used (up to 10,596 controls and 8,506 T1D cases, n = 2,506 for GADA, n = 2,498 for IA-2A, n = 4,328 for PCA and n = 8,300 for TPOA). p-values and odds ratio (OR) and 95% confidence interval (CI) for the minor allele are computed using logistic regressions independently for each SNP (1 df trend test) controlling for significant covariates (sex, time since diagnosis and age at diagnosis). Autoantibody status was coded as a binary variable (Methods).