To identify more MHC loci, including CNVs, SNPs, HLA alleles and amino acid polymorphisms, associated with leprosy in the Chinese Northern Han population, we extracted MHC data from a previous GWAS including 1,363 leprosy patients and 1,238 controls and conducted HLA imputation based on a large Han-MHC reference panel. Here, HLA-C is linked to leprosy.