Bio-medical entity extraction using support vector machines

Thomas J, Milward D, Ouzounis C, Pulman S, Carroll M. Automatic extraction of protein interactions from scientific abstracts. In: Altman RB, Dunker AK, Hunter L, Klein TE, editors. Pacific Symposium on Biocomputing 5. Honolulu, Hawaii, USA; 2000;538–49. Craven, 1999, Constructing biological knowledge bases by extracting information from text sources, 77 de Bessé, 1997, Glossary of terms used in terminology, Terminology, 4, 117, 10.1075/term.4.1.08bes Justeson, 1995, Technical terminology: some linguistic properties and an algorithm for identification in text, Nat Lang Eng, 28, 9, 10.1017/S1351324900000048 DARPA. Proceedings of the Sixth Message Understanding Conference(MUC-6). Columbia, MD, USA: Morgan Kaufmann; 1995. Bikel, 1997, Nymble: a high-performance learning name-finder, 194 Freitag, 1999, Information extraction with HMMs and shrinkage Sekine, 1998, A decision tree method for finding and classifying names in Japanese texts Borthwick, 1998, Exploiting diverse knowledge sources via maximum entropy in named entity recognition, 152 Herzig, 1997, Extraction of medical information from textual sources: a statistical variant of the boundary word method Vapnik, 1995, The nature of statistical learning theory, 10.1007/978-1-4757-2440-0 Takeuchi, 2002, Use of support vector machines in extended named entity recognition, 119 Nobata, 2000, Comparison between tagged corpora for the named entity task, 20 MEDLINE. The PubMed database can be found at: http://www.ncbi.nlm.nih.gov/PubMed/; 1999. Kashyap V, Sheth A. Semantic heterogeneity in global information systems: the role of metadata, context and ontologies. In: Papzoglou M, Schlageter G, editors. Cooperative information systems: current trends and directions. Academic Press; 1996. Gruber, 1993, A translation approach to portable ontology specifications, Knowl Acquisit, 5, 199, 10.1006/knac.1993.1008 Lindberg, 1993, The unified medical language system, Methods Informat Med, 32, 281, 10.1055/s-0038-1634945 Lovis, 1995, Word segmentation processing: a way to exponentially extend medical dictionaries, Medinfo, 8, 28 NLM. Medical subject headings, bethesda, MD: National Library of Medicine; 1997. Bairoch, 1997, The SWISS-PROT protein sequence data bank and its new supplement TrEMBL, Nucleic Acids Res, 25, 31, 10.1093/nar/25.1.31 Tateishi Y, Ohta T, Collier N, Nobata C, Ibushi K, Tsujii J. Building an annotated corpus in the molecular-biology domain. In: Workshop on Semantic Annotation and Intelligent Content. Luxemburg; 2000 (held in conjunction with COLING’2000). Collier, 2003, A framework for integrating deep and shallow semantic structures in text mining, vol. 2773 Burges, 1998, A tutorial on support vector machines for pattern recognition, Data Mining Knowl Discov, 2, 121, 10.1023/A:1009715923555 Cristianini, 2000, An introduction to support vector machines and other kernel-based learning methods Trends and controversies: support vector machines. IEEE Intell Sys 1998:18–28. Vapnik, 1982, Estimation of dependencies basd on empirical data Schölkopf, 1998, Support vector methods in learning and feature extraction, Aust J Intell Inform Process Sys, 1, 3 Chapelle, 2002, Choosing multiple parameters for support vector machines, Machine Learning, 46, 131, 10.1023/A:1012450327387 Cortes, 1995, Support-vector networks, Machine Learning, 20, 273, 10.1007/BF00994018 Joachims T. Making large-scale SVM learning practical. In: Scholkopf B, Burges C, Smola A, editors. Advances in Kernel methods—support vector learning. Cambridge, MA: MIT Press; 1999. p. 169–84. Kreßel U. Pairwise classification and support vector machines. In: Scholkopf B, Burges C, Smola A, editors. Advances in Kernel methods—support vector learning. Cambridge, MA: MIT Press; 1999. p. 255–68. Brill, 1992, A simple rule-based part of speech tagger, 152 Tapanainen P, Järvinen T. A non-projective dependency parser. In: Grishman R, editors. Proceedings of the Fifth Conference on Applied Natural Language Processing. Washington Marriot Hotel, Washington, DC: Association of Computational Linguistics; 1997. p. 64–71. van Rijsbergen, 1979, Information retrieval