Two-phase biomedical named entity recognition using a hybrid method

Seonho Kim; Juntae Yoon; Kyung Mi Park; Hae Chang Rim

doi:10.1007/11562214_57

Two-phase biomedical named entity recognition using a hybrid method

Seonho Kim, Juntae Yoon, Kyung Mi Park, Hae Chang Rim

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

21 Citations (Scopus)

Abstract

Biomedical named entity recognition (NER) is a difficult problem in biomedical information processing due to the widespread ambiguity of terms out of context and extensive lexical variations. This paper presents a two-phase biomedical NER consisting of term boundary detection and semantic labeling. By dividing the problem, we can adopt an effective model for each process. In our study, we use two exponential models, conditional random fields and maximum entropy, at each phase. Moreover, results by this machine learning based model are refined by rule-based postprocessing implemented using a finite state method. Experiments show it achieves the performance of F-score 71.19% on the JNLPBA 2004 shared task of identifying 5 classes of biomedical NEs.

Original language	English
Title of host publication	Natural Language Processing - IJCNLP 2005 - Second International Joint Conference, Proceedings
Publisher	Springer Verlag
Pages	646-657
Number of pages	12
ISBN (Print)	3540291725, 9783540291725
DOIs	https://doi.org/10.1007/11562214_57
Publication status	Published - 2005
Event	2nd International Joint Conference on Natural Language Processing, IJCNLP 2005 - Jeju Island, Korea, Republic of Duration: 2005 Oct 11 → 2005 Oct 13

Publication series

Name	Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume	3651 LNAI
ISSN (Print)	0302-9743
ISSN (Electronic)	1611-3349

Other

Other	2nd International Joint Conference on Natural Language Processing, IJCNLP 2005
Country/Territory	Korea, Republic of
City	Jeju Island
Period	05/10/11 → 05/10/13

ASJC Scopus subject areas

Theoretical Computer Science
General Computer Science

Access to Document

10.1007/11562214_57

Cite this

Kim, S., Yoon, J., Park, K. M., & Rim, H. C. (2005). Two-phase biomedical named entity recognition using a hybrid method. In Natural Language Processing - IJCNLP 2005 - Second International Joint Conference, Proceedings (pp. 646-657). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 3651 LNAI). Springer Verlag. https://doi.org/10.1007/11562214_57

Two-phase biomedical named entity recognition using a hybrid method. / Kim, Seonho; Yoon, Juntae; Park, Kyung Mi et al.
Natural Language Processing - IJCNLP 2005 - Second International Joint Conference, Proceedings. Springer Verlag, 2005. p. 646-657 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 3651 LNAI).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Kim, S, Yoon, J, Park, KM & Rim, HC 2005, Two-phase biomedical named entity recognition using a hybrid method. in Natural Language Processing - IJCNLP 2005 - Second International Joint Conference, Proceedings. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 3651 LNAI, Springer Verlag, pp. 646-657, 2nd International Joint Conference on Natural Language Processing, IJCNLP 2005, Jeju Island, Korea, Republic of, 05/10/11. https://doi.org/10.1007/11562214_57

Kim S, Yoon J, Park KM, Rim HC. Two-phase biomedical named entity recognition using a hybrid method. In Natural Language Processing - IJCNLP 2005 - Second International Joint Conference, Proceedings. Springer Verlag. 2005. p. 646-657. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)). doi: 10.1007/11562214_57

Kim, Seonho ; Yoon, Juntae ; Park, Kyung Mi et al. / Two-phase biomedical named entity recognition using a hybrid method. Natural Language Processing - IJCNLP 2005 - Second International Joint Conference, Proceedings. Springer Verlag, 2005. pp. 646-657 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)).

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Two-phase biomedical named entity recognition using a hybrid method

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