The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2007-11-07

AUTHORS

Barry Smith, Michael Ashburner, Cornelius Rosse, Jonathan Bard, William Bug, Werner Ceusters, Louis J Goldberg, Karen Eilbeck, Amelia Ireland, Christopher J Mungall, Neocles Leontis, Philippe Rocca-Serra, Alan Ruttenberg, Susanna-Assunta Sansone, Richard H Scheuermann, Nigam Shah, Patricia L Whetzel, Suzanna Lewis

ABSTRACT

The value of any kind of data is greatly enhanced when it exists in a form that allows it to be integrated with other data. One approach to integration is through the annotation of multiple bodies of data using common controlled vocabularies or 'ontologies'. Unfortunately, the very success of this approach has led to a proliferation of ontologies, which itself creates obstacles to integration. The Open Biomedical Ontologies (OBO) consortium is pursuing a strategy to overcome this problem. Existing OBO ontologies, including the Gene Ontology, are undergoing coordinated reform, and new ontologies are being created on the basis of an evolving set of shared principles governing ontology development. The result is an expanding family of ontologies designed to be interoperable and logically well formed and to incorporate accurate representations of biological reality. We describe this OBO Foundry initiative and provide guidelines for those who might wish to become involved. More... »

PAGES

1251-1255

References to SciGraph publications

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  • 2008. CARO – The Common Anatomy Reference Ontology in ANATOMY ONTOLOGIES FOR BIOINFORMATICS
  • 2008. The Foundational Model of Anatomy Ontology in ANATOMY ONTOLOGIES FOR BIOINFORMATICS
  • 2004-04-27. e-Neuroscience: challenges and triumphs in integrating distributed data from molecules to brains in NATURE NEUROSCIENCE
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  • 2004. On the Application of Formal Principles to Life Science Data: a Case Study in the Gene Ontology in DATA INTEGRATION IN THE LIFE SCIENCES
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  • Journal

    TITLE

    Nature Biotechnology

    ISSUE

    11

    VOLUME

    25

    Author Affiliations

  • Department of Philosophy and New York State Center of Excellence in Bioinformatics and Life Sciences, University at Buffalo, 701 Ellicott Street, 14203, Buffalo, New York, USA
  • Department of Genetics, University of Cambridge, Downing Street, CB2 3EH, Cambridge, UK
  • Department of Biological Structure, Box 357420, University of Washington, 98195, Seattle, Washington, USA
  • Department of Biomedical Sciences, The University of Edinburgh, 1 George Square, EH8 9JZ, Edinburgh, Scotland, UK
  • Department of Neurobiology and Anatomy, Drexel University College of Medicine, 2900 Queen Lane, 19129, Philadelphia, Pennsylvania, USA
  • Department of Psychiatry and New York State Center of Excellence in Bioinformatics and Life Sciences, University at Buffalo, 701 Ellicott Street, 14203, Buffalo, New York, USA
  • Department of Oral Biology and New York State Center of Excellence in Bioinformatics and Life Sciences, University at Buffalo, 701 Ellicott Street, 14203, Buffalo, New York, USA
  • Eccles Institute of Human Genetics, University of Utah, 15 North 2030 East, 84112, Salt Lake City, Utah, USA
  • European Bioinformatics Institute, Wellcome Trust Genome Campus, CB10 1SD, Hinxton, Cambridge, UK
  • Life Sciences Division, Lawrence Berkeley National Lab, 1 Cyclotron Road, 94720, Berkeley, California, USA
  • Department of Chemistry, Bowling Green State University, 212 Physical Sciences Laboratory Building, 1001 East Wooster Street, 43403, Bowling Green, Ohio, USA
  • Science Commons, c/o Massachusetts Institute of Technology Computer Science and Artificial Intelligence Laboratory, Building 32-386D, 32 Vassar Street, 02139, Cambridge, Massachusetts, USA
  • Department of Pathology, University of Texas Southwestern Medical Center, Harry Hines Blvd., 75390, Dallas, Texas, USA
  • Stanford Medical Informatics, Stanford University School of Medicine, 251 Campus Drive, 94305, Stanford, California, USA
  • Center for Bioinformatics and Department of Genetics, University of Pennsylvania School of Medicine, 423 Guardian Drive, 19104, Philadelphia, Pennsylvania, USA
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/nbt1346

    DOI

    http://dx.doi.org/10.1038/nbt1346

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1028001312

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/17989687


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