RT Journal Article
SR Electronic
T1 <kbd>TRONCO</kbd>: an R package for the inference of cancer progression models from heterogeneous genomic data
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 027474
DO 10.1101/027474
A1 Luca De Sano
A1 Giulio Caravagna
A1 Daniele Ramazzotti
A1 Alex Graudenzi
A1 Giancarlo Mauri
A1 Bud Mishra
A1 Marco Antoniotti
YR 2015
UL http://biorxiv.org/content/early/2015/09/24/027474.abstract
AB Motivation We introduce TRONCO (TRanslational ONCOlogy), an open-source R package that implements the state-of-the-art algorithms for the inference of cancer progression models from (epi)genomic mutational profiles. TRONCO can be used to extract population-level models describing the trends of accumulation of alterations in a cohort of cross-sectional samples, e.g., retrieved from publicly available databases, and individual-level models that reveal the clonal evolutionary history in single cancer patients, when multiple samples, e.g., multiple biopsies or single-cell sequencing data, are available. The resulting models can provide key hints in uncovering the evolutionary trajectories of cancer, especially for precision medicine or personalized therapy.Availability TRONCO is released under the GPL license, and it is hosted at (Software section) http://bimib.disco.unimib.it/ and archived also at bioconductor.org.Contact tronco{at}disco.unimib.it