Clinical Trial Ontology
The core Ontology of Clinical Trials (CTO) will serve as a structured resource integrating basic terms and concepts in the context of clinical trials. Thereby covering clinicaltrails.gov. CoreCTO will serve as a basic ontology to generate extended versions for specific applications such as annotation of variables in study documents from clinical trials.
Ontology information
BFO 2 Reference: BFO's treatment of continuants and occurrents - as also its treatment of regions, rests on a dichotomy between space and time, and on the view that there are two perspectives on reality - earlier called the 'SNAP' and 'SPAN' perspectives, both of which are essential to the non-reductionist representation of reality as we understand it from the best available science.
BFO 2 Reference: BFO does not claim to provide complete coverage of entities of all types. It seeks only to provide coverage of those entities studied by empirical science together with those entities which affect or are involved in human activities such as data processing and planning - coverage that is sufficiently broad to provide assistance to those engaged in building domain ontologies for purposes of data annotation.
BFO 2 Reference: For both terms and relational expressions in BFO, we distinguish between primitive and defined. 'Entity' is an example of a primitive term. Primitive terms in a highest-level ontology such as BFO are terms that are so basic to our understanding of reality that there is no way of defining them in a non-circular fashion. For these, therefore, we can provide only elucidations, supplemented by examples and by axioms.
Johannes Darms (Fraunhofer SCAI)
Stephan Gebel (Fraunhofer SCAI)
Alpha Tom Kodamullil (Fraunhofer SCAI)
Sumit Madan (Fraunhofer SCAI)
Astghik Sargsyan (Fraunhofer SCAI)
Leonard Jacuzzo
Bill Duncan
Albert Goldfain
Barry Smith
Stefan Schulz
Werner Ceusters
Asiyah Yu Lin (CDRH, Food and Drug Administration)
Selja Seppälä
Leon Li (NIH)
Thomas Bittner
Randall Dipert
Yongqun "Oliver" He
Oliver He (University of Michigan)
Melanie Courtot
James A. Overton
Janna Hastings
Ron Rudnicki
Fabian Neuhaus
Chris Mungall
Mathias Brochhausen
David Osumi-Sutherland
Jonathan Bona
Bjoern Peters
Pierre Grenon
Shounak Baksi (Causality Biomodels)
Jie Zheng
Larry Hunter
Geena Mariya Jose (Causality Biomodels)
Alan Ruttenberg
Holger Stenzhorn
Ludger Jansen
Mauricio Almeida
Mark Ressler
bfo.clif
https://github.com/BFO-ontology/BFO/tree/master/src/ontology/owl-group/specification/
Please see the project site https://github.com/BFO-ontology/BFO, the bfo2 owl discussion group http://groups.google.com/group/bfo-owl-devel, the bfo2 discussion group http://groups.google.com/group/bfo-devel, the tracking google doc http://goo.gl/IlrEE, and the current version of the bfo2 reference http://purl.obolibrary.org/obo/bfo/dev/bfo2-reference.docx. This ontology is generated from a specification at https://github.com/BFO-ontology/BFO/tree/master/src/ontology/owl-group/specification/ and with the code that generates the OWL version in https://github.com/BFO-ontology/BFO/tree/master/src/tools/. A very early version of BFO version 2 in CLIF is at http://purl.obolibrary.org/obo/bfo/dev/bfo.clif.
The BSD license on the BFO project site refers to code used to build BFO.
This BFO 2.0 version represents a major update to BFO and is not strictly backwards compatible with BFO 1.1. The previous OWL version of BFO, version 1.1.1 will remain available at http://ifomis.org/bfo/1.1 and will no longer be updated. The BFO 2.0 OWL is a classes-only specification. The incorporation of core relations has been held over for a later version.
CTO: Core Ontology of Clinical Trials
googlegroups.com
bfo-discuss
bfo-devel
owl
https://github.com/BFO-ontology/BFO/tree/master/src/tools/
bfo-owl-devel