Abstract
Ontology population is a knowledge acquisition activity that relies on (semi-) automatic methods to transform un-structured, semi-structured and structured data sources into instance data. A semantic role is a relationship between a syntactic constituent and a predicate that defines the role of a verbal argument in the event expressed by the verb. In this work, we describe a framework where top level ontologies that define the basic semantic relations in biomedical domains are mapped onto semantic role labeling resources in order to develop a tool for ontology population from biomedical natural language text. This framework has been validated by using an ontology extracted from the GENIA corpus.
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Smith, B., Ceusters, W., Klagges, B., Kohler, J., Kumar, A., Lomax, J., Mungall, C.J., Neuhaus, F., Rector, A., Rosse, C.: Relations in Biomedical Ontologies. Genome Biol. 6, R46 (2005)
Beißwanger, E., Schulz, S., Stenzhorn, H., Hahn, U.: BioTop: An Upper Domain Ontology for the Life Sciences - A Description of its Current Structure, Contents, and Interfaces to OBO Ontologies. Applied Ontology 3(4), 205–212 (2008)
Rak, R., Kurgan, L., Reformat, M.: xGENIA: A comprehensive OWL ontology based on the GENIA corpus. Bioinformation 1(9), 360–362 (2007)
Kim, J., Ohta, T., Tateisi, Y., Tsujii, J.: GENIA corpus - a semantically annotated corpus for bio-textmining. Bioinformatics (19), 180–182 (2003)
Moreda, P., Llorens, H., Saquete, E., Palomar, M.: Combining semantic information in question answering. Information Processing and Management (2010) (article in press, corrected proof )
Ruiz-Martinez, J.M., Valencia-Garcia, R., Martinez-Bejar, R., Hoffmann, A.: Populating biomedical ontologies from natural language texts. In: Proceedings of KEOD 2010, Valencia, Spain (2010)
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© 2011 Springer-Verlag Berlin Heidelberg
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Ruiz-Martínez, J.M., Valencia-García, R., Martínez-Béjar, R. (2011). BioOntoVerb Framework: Integrating Top Level Ontologies and Semantic Roles to Populate Biomedical Ontologies. In: Muñoz, R., Montoyo, A., Métais, E. (eds) Natural Language Processing and Information Systems. NLDB 2011. Lecture Notes in Computer Science, vol 6716. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-22327-3_39
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DOI: https://doi.org/10.1007/978-3-642-22327-3_39
Publisher Name: Springer, Berlin, Heidelberg
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