Fig. 1

Illustration of the experimental approach for detecting common breakpoint regions. We computed SNP-CNV - green dots - for each chromosome (a) and computed segments of similar copy-number - red segments (b). To assess regions with frequent chromosomal aberrations, we divided each chromosome into candidate regions of 100 kb size (c). Within each 100 kb bin, we counted each beginning of a new segCNV with difference in log2-ratio of 0.5 as a breakpoint. Breakpoint regions with counts in multiple samples (d) were considered as common breakpoint regions and further analyzed