Notably, HLA-B*08:01, HLA-DRB1*03:01 and HLA-DQB1*02 which are a part of the AH8.1 haplotype, relating to regional grey matter volumes, cortical area and TH in our study have been found to be associated with schizophrenia risk.16 These three alleles were also the most significant HLA allele that associated with major depression with modest effect size.38 Parkinson’s disease was reported to be associated with HLA-DRB1*04 and HLA-DQA1*03:01.17,18,44 Our findings could help unveil the mechanisms through which the HLA haplotypes contribute to neuropsychiatric and neurological diseases. Here, HLA-DQA1 is linked to major depressive disorder.