Ontology-based scalable and portable information extraction system to extract biological knowledge from huge collection of biomedical Web documents

Xiaohua Hu, T. Y. Lin, Il Yeol Song, Xia Lin, Illhoi Yoo, Mark Lechner, Min Song

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

14 Citations (Scopus)

Abstract

Automated discovery and extraction of biological knowledge from biomedical web documents has become essential because of the enormous amount of biomedical literature published each year, In this paper we present an ontology-based scalable and portable information extraction system to automatically extract biological knowledge from huge collection of online biomedical web documents. Our method integrates ontology-based semantic tagging, information extraction and data mining together, automatically learns the patterns based on a few user seed tuples, and then extract new tuples from the biomedical web documents based on the discovered patterns. A novel system SPIE (Scalable and Portable Information Extraction) is implemented and tested on the PuBMed to find the chromatin protein-protein interaction and the experimental results indicate our approach is very effective in extracting biological knowledge from huge collection of biomedical web documents.

Original languageEnglish
Title of host publicationProceedings - IEEE/WIC/ACM International Conference on Web Intelligence, WI 2004
EditorsN. Zhong, H. Tirri, Y. Yao, L. Zhou
Pages77-83
Number of pages7
Publication statusPublished - 2004 Dec 1
EventProceedings - IEEE/WIC/ACM International Conference on Web Intelligence, WI 2004 - Beijing, China
Duration: 2004 Sep 202004 Sep 24

Publication series

NameProceedings - IEEE/WIC/ACM International Conference on Web Intelligence, WI 2004

Other

OtherProceedings - IEEE/WIC/ACM International Conference on Web Intelligence, WI 2004
CountryChina
CityBeijing
Period04/9/2004/9/24

All Science Journal Classification (ASJC) codes

  • Engineering(all)

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    Hu, X., Lin, T. Y., Song, I. Y., Lin, X., Yoo, I., Lechner, M., & Song, M. (2004). Ontology-based scalable and portable information extraction system to extract biological knowledge from huge collection of biomedical Web documents. In N. Zhong, H. Tirri, Y. Yao, & L. Zhou (Eds.), Proceedings - IEEE/WIC/ACM International Conference on Web Intelligence, WI 2004 (pp. 77-83). (Proceedings - IEEE/WIC/ACM International Conference on Web Intelligence, WI 2004).