In this study, we focused on the IDH1mt subtype glioma and found that the risk model constructed using HLA-DQA2, HOXA3, and SAA2 showed remarkable prognostic value for IDH1mt glioma in both TCGA and CGGA cohorts but not for wtIDH1-glioma. The gene discussed is HLA-DQA2; the disease is central nervous system cancer.