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Identifying interactions between chemical entities in biomedical text

Lamurias, Andre ; Couto, Francisco M. ; Ferreira, João D.

Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516)


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Abstract:
Interactions between chemical compounds described in biomedical text can be of great importance to drug discovery and design, as well as pharmacovigilance. We developed a novel system, "Identifying Interactions between Chemical Entities" (IICE), to identify chemical interactions described in text. Kernel-based Support Vector Machines first identify the interactions and then an ensemble classifier validates and classifies the type of each interaction. This relation extraction module was evaluated with the corpus released for the DDI Extraction task of SemEval 2013, obtaining results comparable to state-of-the-art methods for this type of task. We integrated this module with our chemical named entity recognition module and made the whole system available as a web tool at www.lasige.di.fc.ul.pt/webtools/iice.


Institution: Faculty of Technology, Research Groups in Informatics
DDC classification: Data processing, computer science, computer systems

Suggested Citation:
Lamurias, Andre ; Couto, Francisco M. ; Ferreira, João D.  (2014)  Identifying interactions between chemical entities in biomedical text. Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516), 11(3): Special Issue: Selected extended papers of the 8th International Conference on Practical Applications of Computational Biology and Bioinformatics, Salamanca, Spain, 2014

Online-Journal: http://journal.imbio.de/article.php?aid=247
URL: http://biecoll.ub.uni-bielefeld.de/volltexte/2014/5338



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