What is ChainFinder?

ChainFinder is an algorithm for identifying complex sets of DNA rearrangements and deletions in cancer genomes that may reflect coordinate chromosomal alterations.


How does ChainFinder work?

ChainFinder first models the expected chromosomal distribution of breakpoints from independently arising rearrangements. The algorithm then profiles user-provided copy number data and somatic fusion data for sets of rearrangements and associated gene deletions that are unlikely to have arisen independently based on their deviation from the predicted distribution. Please see Baca S et al. Punctuated Evolution of Prostate Cancer Genomes. Cell. 2013 for additional details.