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Taking shortcuts with OWL using safe macros
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  • Published: 19 November 2010

Taking shortcuts with OWL using safe macros

  • Christopher Mungall1,
  • Alan Ruttenberg2 &
  • David Osumi-Sutherland3 

Nature Precedings (2010)Cite this article

  • 276 Accesses

  • 5 Citations

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Abstract

Accurate representation of complex domains such as biology demands powerful and expressive ontology languages such as OWL. However, the complex nested class expressions required for modeling can be a hindrance to ontology authoring and adoption. These class expressions can appear opaque to ___domain experts, and even users proficient in OWL can benefit from some kind of syntactic sugar or "short-cut"strategy, especially when authoring large ontologies.One solution is to have ___domain experts fill in simple templates (for example, in Excel) and translate the results into more complex axioms,but this has the disadvantage of being disconnected from full ontology authoring and reasoning environment.We present here a method of specifying shortcut properties directly in OWL. These shortcut properties can be used in similar ways as object properties within the OWL environment, with the resulting simple axioms translated automatically to more complex axioms via macro expansion. We describe some example scenarios where this is of use in authoring existing bio-ontologies.One of the main implications of this work is a way to simplify the translation between OBO format and OWL, and the use of RDF triple-stores with complex OWL ontologies.

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Authors and Affiliations

  1. Lawrence Berkeley National Laboratory https://www.nature.com/nature

    Christopher Mungall

  2. University of Buffalo https://www.nature.com/nature

    Alan Ruttenberg

  3. University of Cambridge https://www.nature.com/nature

    David Osumi-Sutherland

Authors
  1. Christopher Mungall
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  2. Alan Ruttenberg
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  3. David Osumi-Sutherland
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Corresponding author

Correspondence to Christopher Mungall.

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Mungall, C., Ruttenberg, A. & Osumi-Sutherland, D. Taking shortcuts with OWL using safe macros. Nat Prec (2010). https://doi.org/10.1038/npre.2010.5292.1

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  • Received: 19 November 2010

  • Accepted: 19 November 2010

  • Published: 19 November 2010

  • DOI: https://doi.org/10.1038/npre.2010.5292.1

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Keywords

  • OBO OWL ontology

This article is cited by

  • ROBOT: A Tool for Automating Ontology Workflows

    • Rebecca C. Jackson
    • James P. Balhoff
    • James A. Overton

    BMC Bioinformatics (2019)

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