Importantly, ALLIUM consistently selected well-known ALL genes such as NUTM1 for NUTM1-r, PBX1 for TCF3::PBX1, MEF2C for MEF2D-r, CEBPA for ZNF384-r, CpG sites in CBFA2T3 for the ETV6-group, the expression of CDKN2A and CpG sites in AUTS2 for the PAX5alt group, along with CpG sites in ETV6, RUNX2, and IKZF1 for PAX5 P80R (Fig. 3c, d). Here, ZNF384 is linked to acute lymphoblastic leukemia.