Background

Source ontologies may be imported in their entirety or included selectively through the MIREOT approach – minimum information to reference an external ontology term – used when importing an entire ontology would include unnecessary classes, properties, or axioms.

Imports vs. modules

The Integrated Semantic Framework is maintained in a file repository (currently on Google codeon GitHub [full ISF] [VIVO-ISF]) that reflects the source ontologies while creating distribution modules grouping classes and properties more by function, such as grants, agents, education, etc.

Ontologies Integrated into the

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Integrated Semantic Framework

The ISF ontology incorporates classses and properties used in both the VIVO and eagle-i projects, from several other well-known ontologies, including the following:leverages the following ontologies in a unified, semantic structure:

• VIVO – http://vivoweb.org/ontology/core
• eagle-i Resource Ontology (ERO) – https://open.med.harvard.edu/wiki/display/eaglei/Ontology
• Basic Formal Ontology (BFO) – http://www.ifomis.org/bfo
• Bibliographic Ontology (BIBO) – http://bibliographic-ontology.org/
• Cell Ontology (CL) – http://cellontology.org/?q=download
• Event Ontology – http://motools.sourceforge.net/event/event.html
• OBO Foundry ontologies
  
  • Basic formal ontology (BFO)
  • Relations ontology (RO)
• Other ontologies
• Friend of a Friend (FOAF) – http://www.foaf-project.org/
• Gene Ontology (GO) – http://geneontology.sourceforge.net/#code
• The Bibliographic Ontology (BIBO, namespace bibo)
  
  • BIBO includes the Event Ontology
Geopolitical.owl, from the U.N. Food and Agriculture Organization
• Information Artifact Ontology (IAO) – https://github.com/information-artifact-ontology/IAO/
• Ontology for Biomedical Investigations (OBI) – http://obi.sourceforge.net/ontologyInformation/
• Ontology of Clinical Research (OCRe) – http://code.google.com/p/ontology-of-clinical-research/
• Reagent Ontology (ReO) – http://code.google.com/p/reagent-ontology/
• Relations Ontology (RO) – http://obofoundry.org/ro/
• Software Ontology (SWO) – http://theswo.sourceforge.net/
• Sequence Ontology (SO) – http://www.sequenceontology.org/
• SKOS Vcard(Simple Knowledge Organization System) – http://www.w3.org/2004/02/skos/
• Uberon (Uber anatomy ontology) – http://obo.svn.sourceforge.net/viewvc/obo/uberon/releases/
• vCard – http://www.w3.org/TR/vcard-rdf/