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CRAVAT 4: Cancer-Related Analysis of Variants Toolkit

By David L. Masica, Chris Douville, Collin Tokheim, Rohit Bhattacharya, RyangGuk Kim, Kyle Moad, Michael C. Ryan, Rachel Karchin

Posted 12 Jul 2017
bioRxiv DOI: 10.1101/162859 (published DOI: 10.1158/0008-5472.CAN-17-0338)

Cancer sequencing studies are increasingly comprehensive and well-powered, returning long lists of somatic mutations that can be difficult to sort and interpret. Diligent analysis and quality control can require multiple computational tools of distinct utility and producing disparate output, creating additional challenges for the investigator. The Cancer-Related Analysis of Variants Toolkit (CRAVAT) is an evolving suite of informatics tools for mutation interpretation that includes mutation projecting and quality control, impact prediction and extensive annotation, gene- and mutation-level interpretation including joint prioritization of all nonsilent consequence types, and structural and mechanistic visualization. Results from CRAVAT submissions are explored in an interactive, user-friendly web-environment with dynamic filtering and sorting designed to highlight the most informative mutation, even in the context of very large studies. CRAVAT can be run on a public web-portal, in the cloud, or downloaded for local use, and is easily integrated with other methods for cancer omics analysis.

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