Biomedical ontology improves biomedical literature clustering performance: a comparison study

  • Authors:
  • Illhoi Yoo;Xiaohua Hu;Il-Yeol Song

  • Affiliations:
  • Department of Health Management and Informatics, School of Medicine, University of Missouri-Columbia, Columbia, MO 65211, USA.;College of Information Science and Technology, Drexel University, Philadelphia, PA 19104, USA.;College of Information Science and Technology, Drexel University, Philadelphia, PA 19104, USA

  • Venue:
  • International Journal of Bioinformatics Research and Applications
  • Year:
  • 2007

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Abstract

Document clustering has been used for better document retrieval and text mining. In this paper, we investigate if a biomedical ontology improves biomedical literature clustering performance in terms of the effectiveness and the scalability. For this investigation, we perform a comprehensive comparison study of various document clustering approaches such as hierarchical clustering methods, Bisecting K-means, K-means and Suffix Tree Clustering (STC). According to our experiment results, a biomedical ontology significantly enhances clustering quality on biomedical documents. In addition, our results show that decent document clustering approaches, such as Bisecting K-means, K-means and STC, gains some benefit from the ontology while hierarchical algorithms showing the poorest clustering quality do not reap the benefit of the biomedical ontology.