Genealogical-based method for multiple ontology self-extension in MeSH

Yu Wen Guo, Yi Tsung Tang, Hung Yu Kao

Research output: Contribution to journalArticlepeer-review

1 Citation (Scopus)


During the last decade, the advent of Ontologies used for biomedical annotation has had a deep impact on life science. MeSH is a well-known Ontology for the purpose of indexing journal articles in PubMed, improving literature searching on multi-domain topics. Since the explosion of data growth in recent years, there are new terms, concepts that weed through the old and bring forth the new. Automatically extending sets of existing terms will enable bio-curators to systematically improve text-based ontologies level by level. However, most of the related techniques which apply symbolic patterns based on a literature corpus tend to focus on more general but not specific parts of the ontology. Therefore, in this work, we present a novel method for utilizing genealogical information from Ontology itself to find suitable siblings for ontology extension. Based on the breadth and depth dimensions, the sibling generation stage and pruning strategy are proposed in our approach. As a result, on the average, the precision of the genealogical-based method achieved 0.5, with the best 0.83 performance of category 'Organisms.' We also achieve average precision 0.69 of 229 new terms in MeSH 2013 version.

Original languageEnglish
Article number6823764
Pages (from-to)124-130
Number of pages7
JournalIEEE Transactions on Nanobioscience
Issue number2
Publication statusPublished - 2014 Jun

All Science Journal Classification (ASJC) codes

  • Biotechnology
  • Bioengineering
  • Medicine (miscellaneous)
  • Biomedical Engineering
  • Pharmaceutical Science
  • Computer Science Applications
  • Electrical and Electronic Engineering

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