Our results show that several of the HLA-CD associations are related to atypical forms of CLL (strong CD22 is associated with HLA-B*49:01:01, HLA-C*07:01:01 and HLA-DPB1*02:01:01, strong CD45 is associated with HLA-C*07:01, strong CD20 is associated with HLA-B*49:01:01 and HLA-DRB1*11:04:01, strong CD79b is linked with HLA-DPA1*02:01:02, and there is an association between HLA-DRB1*14:01:01, HLA-DQB1*05:03:01 and HLA-DQA1*01:04:01 with bright CD81). Here, PTPRC is linked to B-cell chronic lymphocytic leukemia.