Our integrative MLPA–aCGH analysis showed that the percentages of deleted genes in the following paired diagnosis/relapse BCP-ALL samples were: IKZF1, 54% vs. 62%, p = 0.691; CDKN2A/B, 54% vs. 23%, p = 0.107; PAX5, 38% vs. 23%, p = 0.673; EBF1, 23% vs. 15%, p = 1.000; BTG1, 23% vs. 23%, p = 1.000; ETV6, 15% vs. 15%, p = 1.000; RB1, 8% vs. 15%, p = 1.000, and PAR1, 15% vs. 8%, p = 1.0. Here, ETV6 is linked to acute lymphoblastic leukemia.