Performance of nFuse breakpoint prediction on breakpoints previously discovered in HCC1954. (A) Shown is the overlap between sets of breakpoints discovered by Bignell et al. (2007), Stephens et al. (2009), Galante et al. (2011), and nFuse. Previously discovered breakpoints are rediscovered by nFuse with a recall of 0.858. (B) Beanplot comparing nFuse breakpoint scores for a random selection of 3000 nFuse breakpoint predictions, and the 296 ‘true positive’ nFuse breakpoint predictions. Score is calculated as −log probability. The nFuse breakpoint scoring ranks true-positive breakpoints significantly higher (closer to zero) than random breakpoints, many of which are expected to be false positives.
