Empowering standardization of cancer vaccines through ontology: enhanced modeling and data analysis.

Journal: Journal of biomedical semantics
PMID: 38890666

Abstract

BACKGROUND: The exploration of cancer vaccines has yielded a multitude of studies, resulting in a diverse collection of information. The heterogeneity of cancer vaccine data significantly impedes effective integration and analysis. While CanVaxKB serves as a pioneering database for over 670 manually annotated cancer vaccines, it is important to distinguish that a database, on its own, does not offer the structured relationships and standardized definitions found in an ontology. Recognizing this, we expanded the Vaccine Ontology (VO) to include those cancer vaccines present in CanVaxKB that were not initially covered, enhancing VO's capacity to systematically define and interrelate cancer vaccines.

Authors

  • Jie Zheng
    State Key Laboratory of Information Engineering in Surveying, Mapping and Remote Sensing, Wuhan University, Wuhan, China.
  • Xingxian Li
    College of Literature, Science, and the Arts, University of Michigan, Ann Arbor, MI, 48109, USA.
  • Anna Maria Masci
    Department of Immunology, Duke University, Durham, North Carolina, United States of America.
  • Hayleigh Kahn
    College of Literature, Science, and the Arts, University of Michigan, Ann Arbor, MI, 48109, USA.
  • Anthony Huffman
    Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI, United States.
  • Eliyas Asfaw
    College of Literature, Science, and the Arts, University of Michigan, Ann Arbor, MI 48109, USA.
  • Yuanyi Pan
    Unit for Laboratory Animal Medicine, University of Michigan Medical School, Ann Arbor, MI 48109, USA.
  • Jinjing Guo
    Unit for Laboratory Animal Medicine, University of Michigan Medical School, Ann Arbor, MI 48109, USA.
  • Virginia He
    The College of Brown University, Brown University, Providence, RI 02912, USA.
  • Justin Song
    College of Electrical Engineering and Computer Science, University of Michigan, Ann Arbor, MI 48109, USA.
  • Andrey I Seleznev
    Dietrich School of Arts and Sciences, University of Pittsburgh, Pittsburgh, PA 15260, USA.
  • Asiyah Yu Lin
    Unit for Laboratory Animal Medicine, University of Michigan Medical School, Ann Arbor, MI 48109, USA.
  • Yongqun He
    University of Michigan Medical School, Ann Arbor, MI 48109 USA ; Unit for Laboratory Animal Medicine, Department of Microbiology and Immunology, Center for Computational Medicine and Bioinformatics, and Comprehensive Cancer Center, University of Michigan Medical School, 1301 MSRB III, 1150 W. Medical Dr., Ann Arbor, MI 48109 USA.

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