Predicting instances of pathway ontology classes for pathway integration.

Journal: Journal of biomedical semantics
Published Date: Jun 13, 2019

Abstract

BACKGROUND: To improve the outcomes of biological pathway analysis, a better way of integrating pathway data is needed. Ontologies can be used to organize data from disparate sources, and we leverage the Pathway Ontology as a unifying ontology for organizing pathway data. We aim to associate pathway instances from different databases to the appropriate class in the Pathway Ontology.

Authors

  • Lucy Lu Wang
    Allen Institute for Artificial Intelligence, Seattle, WA, United States.
  • G Thomas Hayman
    Department of Biomedical Engineering, Medical College of Wisconsin, 8701 W Watertown Plank Rd, Milwaukee, 53226, WI, USA.
  • Jennifer R Smith
    Human and Molecular Genetics Center, Medical College of Wisconsin, Department of Physiology, Medical College of Wisconsin and Department of Surgery, Medical College of Wisconsin, 8701 Watertown Plank Road, Milwaukee, WI53226, USA.
  • Monika Tutaj
    Department of Biomedical Engineering, Medical College of Wisconsin, 8701 W Watertown Plank Rd, Milwaukee, 53226, WI, USA.
  • Mary E Shimoyama
    Department of Biomedical Engineering, Medical College of Wisconsin, 8701 W Watertown Plank Rd, Milwaukee, 53226, WI, USA.
  • John H Gennari
    Department of Biomedical Informatics and Medical Education, University of Washington, 850 Republican St, Seattle, 98109, WA, USA.

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