Genes that were recurrently affected by rearrangements included CDKN2A, SMYD3, RUNX1, CTNNA3, ERBB2, EGFR, MDM2 as well as fragile site genes WWOX and FHIT. In comparison with EAC, BE samples have a lower percentage of the genome affected by copy number changes, and loss of CDKN2A has been identified as an early event in BE [10, 13]. Here, RUNX1 is linked to Barrett esophagus.