HaDextract: Extracting HLA-disease interaction information from biomedical literature

JeongMin Chae, Kinam Park, YoungHee Jung, Soon Young Jung, JiEun Chae, HeungBum Oh

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

Abstract

The HLA control a variety of function involved in immune response and influence susceptibility to over 40 diseases. It is important to find out how HLA cause the disease or modify susceptibility or course of it. In this paper, we developed an automatic HLA-disease information extraction procedure that uses biomedical publications. First, HLA and diseases are recognized in the literature using built-in regular languages and disease categories of Mesh. Second, we generated parse trees for each sentence in PubMed using collins parser. Third, we build our own information extraction algorithm. The algorithm searched parsing trees and extracted relation information from sentences. The precision rate of extracted relations reported 89.6 in randomly selected 144 sentences.

Original languageEnglish
Title of host publicationProceedings of the 2008 2nd International Conference on Future Generation Communication and Networking, FGCN 2008 and BSBT 2008: 2008 International Conference on Bio-Science and Bio-Technology
Pages90-95
Number of pages6
Volume3
DOIs
Publication statusPublished - 2008 Dec 1
Event2008 International Conference on Bio-Science and Bio-Technology, BSBT 2008, held in conjunction with 2008 2nd International Conference on Future Generation Communication and Networking, FGCN 2008 - Hainan Island, China
Duration: 2008 Dec 132008 Dec 15

Other

Other2008 International Conference on Bio-Science and Bio-Technology, BSBT 2008, held in conjunction with 2008 2nd International Conference on Future Generation Communication and Networking, FGCN 2008
CountryChina
CityHainan Island
Period08/12/1308/12/15

Fingerprint

Information Storage and Retrieval
Formal languages
Trees (mathematics)
PubMed
Publications
Language

ASJC Scopus subject areas

  • Biotechnology
  • Computer Networks and Communications
  • Electrical and Electronic Engineering

Cite this

Chae, J., Park, K., Jung, Y., Jung, S. Y., Chae, J., & Oh, H. (2008). HaDextract: Extracting HLA-disease interaction information from biomedical literature. In Proceedings of the 2008 2nd International Conference on Future Generation Communication and Networking, FGCN 2008 and BSBT 2008: 2008 International Conference on Bio-Science and Bio-Technology (Vol. 3, pp. 90-95). [4734286] https://doi.org/10.1109/FGCN.2008.161

HaDextract : Extracting HLA-disease interaction information from biomedical literature. / Chae, JeongMin; Park, Kinam; Jung, YoungHee; Jung, Soon Young; Chae, JiEun; Oh, HeungBum.

Proceedings of the 2008 2nd International Conference on Future Generation Communication and Networking, FGCN 2008 and BSBT 2008: 2008 International Conference on Bio-Science and Bio-Technology. Vol. 3 2008. p. 90-95 4734286.

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

Chae, J, Park, K, Jung, Y, Jung, SY, Chae, J & Oh, H 2008, HaDextract: Extracting HLA-disease interaction information from biomedical literature. in Proceedings of the 2008 2nd International Conference on Future Generation Communication and Networking, FGCN 2008 and BSBT 2008: 2008 International Conference on Bio-Science and Bio-Technology. vol. 3, 4734286, pp. 90-95, 2008 International Conference on Bio-Science and Bio-Technology, BSBT 2008, held in conjunction with 2008 2nd International Conference on Future Generation Communication and Networking, FGCN 2008, Hainan Island, China, 08/12/13. https://doi.org/10.1109/FGCN.2008.161
Chae J, Park K, Jung Y, Jung SY, Chae J, Oh H. HaDextract: Extracting HLA-disease interaction information from biomedical literature. In Proceedings of the 2008 2nd International Conference on Future Generation Communication and Networking, FGCN 2008 and BSBT 2008: 2008 International Conference on Bio-Science and Bio-Technology. Vol. 3. 2008. p. 90-95. 4734286 https://doi.org/10.1109/FGCN.2008.161
Chae, JeongMin ; Park, Kinam ; Jung, YoungHee ; Jung, Soon Young ; Chae, JiEun ; Oh, HeungBum. / HaDextract : Extracting HLA-disease interaction information from biomedical literature. Proceedings of the 2008 2nd International Conference on Future Generation Communication and Networking, FGCN 2008 and BSBT 2008: 2008 International Conference on Bio-Science and Bio-Technology. Vol. 3 2008. pp. 90-95
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