Synapse - OncoTree: A cancer classification system for precision oncology

OncoTree: A cancer classification system for precision oncology Journal Article

Authors:	Kundra, R.; Zhang, H.; Sheridan, R.; Sirintrapun, S. J.; Wang, A.; Ochoa, A.; Wilson, M.; Gross, B.; Sun, Y.; Madupuri, R.; Satravada, B. A.; Reales, D.; Vakiani, E.; Al-Ahmadie, H. A.; Dogan, A.; Arcila, M.; Zehir, A.; Maron, S.; Berger, M. F.; Viaplana, C.; Janeway, K.; Ducar, M.; Sholl, L.; Dogan, S.; Bedard, P.; Surrey, L. F.; Sanchez, I. H.; Syed, A.; Rema, A. B.; Chakravarty, D.; Suehnholz, S.; Nissan, M.; Iyer, G. V.; Murali, R.; Bouvier, N.; Soslow, R. A.; Hyman, D.; Younes, A.; Intlekofer, A.; Harding, J. J.; Carvajal, R. D.; Sabbatini, P. J.; Abou-Alfa, G. K.; Morris, L.; Janjigian, Y. Y.; Gallagher, M. M.; Soumerai, T. A.; Mellinghoff, I. K.; Hakimi, A. A.; Fury, M.; Huse, J. T.; Bagrodia, A.; Hameed, M.; Thomas, S.; Gardos, S.; Cerami, E.; Mazor, T.; Kumari, P.; Raman, P.; Shivdasani, P.; MacFarland, S.; Newman, S.; Waanders, A.; Gao, J.; Solit, D.; Schultz, N.
Article Title:	OncoTree: A cancer classification system for precision oncology
Abstract:	PURPOSE: Cancer classification is foundational for patient care and oncology research. Systems such as International Classification of Diseases for Oncology (ICD-O), Systematized Nomenclature of Medicine Clinical Terms (SNOMED-CT), and National Cancer Institute Thesaurus (NCIt) provide large sets of cancer classification terminologies but they lack a dynamic modernized cancer classification platform that addresses the fast-evolving needs in clinical reporting of genomic sequencing results and associated oncology research. METHODS: To meet these needs, we have developed OncoTree, an open-source cancer classification system. It is maintained by a cross-institutional committee of oncologists, pathologists, scientists, and engineers, accessible via an open-source Web user interface and an application programming interface. RESULTS: OncoTree currently includes 868 tumor types across 32 organ sites. OncoTree has been adopted as the tumor classification system for American Association for Cancer Research (AACR) Project Genomics Evidence Neoplasia Information Exchange (GENIE), a large genomic and clinical data-sharing consortium, and for clinical molecular testing efforts at Memorial Sloan Kettering Cancer Center and Dana-Farber Cancer Institute. It is also used by precision oncology tools such as OncoKB and cBioPortal for Cancer Genomics. CONCLUSION: OncoTree is a dynamic and flexible community-driven cancer classification platform encompassing rare and common cancers that provides clinically relevant and appropriately granular cancer classification for clinical decision support systems and oncology research.
Journal Title:	JCO Clinical Cancer Informatics
Volume:	5
ISSN:	2473-4276
Publisher:	American Society of Clinical Oncology
Date Published:	2021-02-24
Start Page:	221
End Page:	230
Language:	English
DOI:	10.1200/cci.20.00108
PUBMED:	33625877
PROVIDER:	scopus
PMCID:	PMC8240791
DOI/URL:	https://www.scopus.com/inward/record.uri?eid=2-s2.0-85102096013&doi=10.1200%2fCCI.20.00108&partnerID=40&md5=00ae400778a5f4185fbf520f47534cb8
Notes:	Article -- Export Date: 1 April 2021 -- Source: Scopus