Extracting protein-protein interactions from MEDLINE using the hidden vector state model

Article English OPEN
Zhou, Deyu; He, Yulan; Kwoh, Chee K.;

A major challenge in text mining for biomedicine is automatically extracting protein-protein interactions from the vast amount of biomedical literature. We have constructed an information extraction system based on the Hidden Vector State (HVS) model for protein-protein... View more
  • References (29)
    29 references, page 1 of 3

    1 GD. Bader, D. Betel, and CW. Hogue. BIND: the Biomolecular Interaction Network Database. Nucleic Acids Research, 31(1):248-250, 2003.

    2 H. Hermjakob, L. Montecchi-Palazzi, and C. Lewington. IntAct: an open source molecular interaction database. Nucleic Acids Research., 1(32(Database issue)):452- 5, 2004.

    3 C. von Mering, LJ. Jensen, B. Snel, SD. Hooper, and M. Krupp. STRING: known and predicted protein-protein associations, integrated and transferred across organisms. Nucleic Acids Research, 33(Database issue):433-7, 2005.

    4 Miguel A. Andrade and Alfonso Valencia. Automatic extraction of keywords from

    5 Edward M. Marcotte, Ioannis Xenarios, and David Eisenberg. Mining literature for protein-protein interactions. Bioinformatics, 17(4):359-363, 2001.

    6 B. Stapley and G. Benoit. Biobibliometrics: information retrieval and visualization from co-occurrences of gene names in Medline abstracts. In Proceedings of the Pacific Symposium on Biocomputing, pages 529-540, Hawaii, U.S.A, 2000.

    7 I. Donaldson, J. Martin, B. de Bruijn, and C. Wolting. PreBIND and Textomymining the biomedical literature for protein-protein interactions using a support vector machine. BMC Bioinformatics, 4(11), 2003.

    8 Toshihide Ono, Haretsugu Hishigaki, Akira Tanigam, and Toshihisa Takagi. Automated extraction of information on protein-protein interactions from the biological literature. Bioinformatics, 17(2):155-161, 2001.

    9 Christian Blaschke and Alfonso Valencia. The Frame-Based Module of the SUISEKI Information Extraction system. IEEE Intelligent Systems, 17(2):14-20, 2002.

    10 Minlie Huang, Xiaoyan Zhu, and Yu Hao. Discovering patterns to extract proteinprotein interactions from full text. Bioinformatics, 20(18):3604-3612, 2004.

  • Metrics
Share - Bookmark