Detection and comparison of different types of lesions, including UPD, that affect chromosome 7 and influence the survival. (A) Two types of lesions resulting in LOH. Left portion demonstrates a deletion spanning part of the long arm of chromosome 7, shown here as reduction of copy number detected by SNP-A, which is concordant with MC finding (black arrow). Right portion demonstrates copy number neutral LOH (UPD), shown here as normal copy number (SNP-A) and normal karyogram by MC. Pink and blue bars below the idiogram indicate areas of LOH, with the thicker the blue bar the higher the probability of LOH. LOH was confirmed by MS genotyping using CD3+ cells as a nonclonal control. MS marker ID is displayed. Arrow indicates the allelic discrepancies. Location and type of lesions (loss-gray, gain-orange, upd-blue) affecting chromosome 7 are shown (B). Lesions previously not found by MC are marked with a black star. Kaplan-Meier analysis of the survival of patients (irrespective of the treatment received) with −7/del(7q) by MC and with new lesions affecting chromosome (del(7q)/upd(7q)) compared with patients with normal SNP-A analysis (C).