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CTO: A community-based clinical trial ontology and its applications in PubChemRDF and SCAIView

: Lin, A.Y.; Gebel, S.; Li, Q.L.; Madan, S.; Darms, J.; Bolton, E.; Smith, B.; Hofmann-Apitius, M.; He, Y.O.; Kodamullil, A.T.

Volltext ()

Hastings, J.:
11th International Conference on Biomedical Ontologies, ICBO 2020. Online resource : - Joint with the 10th Workshop on Ontologies and Data in Life Sciences, ODLS 2020 and Part of the Bolzano Summer of Knowledge, BoSK 2020. Virtual conference hosted in Bolzano, Italy, September 17, 2020
La Clusaz: CEUR, 2020 (CEUR Workshop Proceedings 2807)
ISSN: 1613-0073
URN: urn:nbn:de:0074-2807-4
12 S.
International Conference on Biomedical Ontologies (ICBO) <11, 2020, Online>
Workshop on Ontologies and Data in Life Sciences (ODLS) <10, 2020, Online>
Bolzano Summer of Knowledge (BoSK) <2020, Online>
Konferenzbeitrag, Elektronische Publikation
Fraunhofer SCAI ()

Driven by the use cases of PubChemRDF and SCAIView, we have developed a first community-based clinical trial ontology (CTO) by following the OBO Foundry principles. CTO uses the Basic Formal Ontology (BFO) as the top level ontology and reuses many terms from existing ontologies. CTO has also defined many clinical trial-specific terms. The general CTO design pattern is based on the PICO framework together with two applications. First, the PubChemRDF use case demonstrates how a drug Gleevec is linked to multiple clinical trials investigating Gleevecâs related chemical compounds. Second, the SCAIView text mining engine shows how the use of CTO terms in its search algorithm can identify publications referring to COVID-19-related clinical trials. Future opportunities and challenges are discussed.