Biomedical concept extraction using concept graphs and ontology-based mapping

Said Bleik, Wei Xiong, Yiran Wang, Min Song

Research output: Chapter in Book/Report/Conference proceedingConference contribution

3 Citations (Scopus)

Abstract

Assigning keywords to articles can be extremely costly. In this paper we propose a new approach to biomedical concept extraction using semantic features of concept graphs to help in automatic labeling of scientific publications. The proposed system extracts key concepts similar to author-provided keywords. We represent full-text documents by graphs and map biomedical terms to predefined ontology concepts. In addition to occurrence frequency weights, we use concept relation weights to rank potential key concepts. We compare our technique to that of KEA's, a state-of-the-art keyphrase extraction software. The results show that using the relations weight significantly improves the performance of concept extraction. The results also highlight the subjectivity of the concept extraction procedure as well as of its evaluation.

Original languageEnglish
Title of host publicationProceedings - 2010 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2010
Pages553-556
Number of pages4
DOIs
Publication statusPublished - 2010
Event2010 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2010 - Hong Kong, China
Duration: 2010 Dec 182010 Dec 21

Publication series

NameProceedings - 2010 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2010

Other

Other2010 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2010
CountryChina
CityHong Kong
Period10/12/1810/12/21

All Science Journal Classification (ASJC) codes

  • Biomedical Engineering
  • Health Informatics

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  • Cite this

    Bleik, S., Xiong, W., Wang, Y., & Song, M. (2010). Biomedical concept extraction using concept graphs and ontology-based mapping. In Proceedings - 2010 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2010 (pp. 553-556). [5706627] (Proceedings - 2010 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2010). https://doi.org/10.1109/BIBM.2010.5706627