The frequencies of autoantibodies against glutamic acid decarboxylase 65 (GAD65) and islet cell antigen (ICA) 512/IA-2 (512/IA-2) are functions of the specific human leukocyte antigen (HLA) in type 1 diabetes mellitus (T1D). We investigated the association of HLA class II (DR and DQ) alleles and haplotypes with the presence of GAD and IA-2 autoantibodies in T1D. Autoantibodies were tested in 88 Tunisian T1D patients and 112 age-and gender-matched normoglycemic control subjects by enzyme immunoassay. Among T1D patients, mean anti-GAD antibody titers were higher in the DRB1*030101 allele (P < 0.001), together with the DRB1*030101/DQB1*0201 (P < 0.001) and DRB1*040101/DQB1*0302 (P ؍ 0.002) haplotypes, while lower anti-GAD titers were associated with the DRB1*070101 (P ؍ 0.001) and DRB1*110101 (P < 0.001) alleles and DRB1*070101/DQB1*0201 (P ؍ 0.001) and DRB1*110101/DQB1*030101 (P ؍ 0.001) haplotypes. Mean anti-IA-2 antibody titers were higher in the DRB1*040101 allele (P ؍ 0.007) and DRB1*040101/DQB1*0302 (P ؍ 0.001) haplotypes but were lower in the DRB1*110101 allele (P ؍ 0.010) and the DRB1*110101 (P < 0.001) and DRB1*110101/DQB1*030101 (P ؍ 0.025) haplotypes. Multinomial regression analysis confirmed the positive association of DRB1*030101 and the negative association of DRB1*110101 and DQB1*030101, along with the DRB1*070101/DQB1*0201 and DRB1*110101/DQB1*030101 haplotypes, with anti-GAD levels. In contrast, only the DRB1*040101/DQB1*0302 haplotype was positively associated with altered anti-IA-2 titers. Increased GAD65 and IA-2 antibody positivity is differentially associated with select HLA class II alleles and haplotypes, confirming the heterogeneous nature of T1D.Type 1 diabetes mellitus (T1D) is an endocrine disease characterized by autoimmune destruction of pancreatic  islet cells (2, 27). Several autoantigens have been implicated in triggering this process, including insulin; the 65-kDa isoform of glutamic acid decarboxylase (GAD) (2,19,26), an enzyme involved in the synthesis of the inhibitory neurotransmitter ␥-aminobutyric acid in pancreatic  islet cells; and islet cell antigen 2 (IA-2), a tyrosine phosphatase expressed in  islet cells (12). Up to 90% of newly diagnosed T1D cases are positive for anti-IA-2 and/or anti-GAD antibodies, compared to the very low prevalence of these autoantibodies in nondiabetic control populations (ϳ1%) (27, 28). Most peptides derived from GAD and IA-2 autoantigens can bind to T1D-predisposing and -protective HLA molecules, although some exceptions were observed (8). Functionally, T cell-proliferative responses from T1D patients identified GAD65 as a likely candidate in the development of anti- islet cell immunity (16).We and others have confirmed the association of select HLA class II alleles and haplotypes with increased risk of T1D (1, 21, 29) and have identified both susceptible (DRB1*030101, DRB1*030101-DQB1*0201, and DRB1*040101-DQB1*0302) and protective (DRB1*070101, DRB1*110101, DRB1*070101-DQB1*0201, and DRB1*110101-DQB1*030101) alleles and ha...