Both GCB and non-GCB showed a significant difference in the mutant allele frequencies of MALT1, CD79B, ROS1, TBL1XR1, PIM1, TET2, and TRAF3. Mutations of PTPN6 (100%), TNFAIP3, TBL1XR1, SOCS1, CXCR4, CDKN2B, KMT2A (all were 50.0%), and ATM (33.3%) were found in patients with MZL. Here, PTPN6 is linked to marginal zone lymphoma.