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 De Sano, Luca
A1 Caravagna, Giulio
A1 Ramazzotti, Daniele
A1 Graudenzi, Alex
A1 Mauri, Giancarlo
A1 Mishra, Bud
A1 Antoniotti, Marco
YR 2016
UL http://biorxiv.org/content/early/2016/02/10/027474.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, it is hosted in the Software section at http://bimib.disco.unimib.it/ and archived also at bioconductor.org.Contact tronco{at}disco.unimib.it