A multi-ontology approach to annotate scientific documents based on a modularization technique
Tài liệu tham khảo
Berners-Lee, 2001, The semantic web, Sci. Am., 284, 34, 10.1038/scientificamerican0501-34
Savova, 2010, Mayo clinical text analysis and knowledge extraction system (ctakes): architecture, component evaluation and applications, JAMIA, 17, 507
Thessen, 2014, Knowledge extraction and semantic annotation of text from the encyclopedia of life, PLoS ONE, 9, e89550, 10.1371/journal.pone.0089550
Tanenblatt, 2010, The conceptmapper approach to named entity recognition
Aronson, 2010, An overview of metamap: historical perspective and recent advances, JAMIA, 17, 229
Kahan, 2001, Annotea: an open RDF infrastructure for shared web annotations, 623
Cunningham, 2002, Gate: an architecture for development of robust HLT applications, 168
Fontes, 2013, An ontology-based reasoning approach for document annotation, 160
Gruber, 1993, A translation approach to portable ontologies, Knowl. Acquis., 5, 199, 10.1006/knac.1993.1008
Jonquet, 2011, Ncbo resource index: ontology-based search and mining of biomedical resources, J. Web Sem., 9, 316, 10.1016/j.websem.2011.06.005
K.T. Belloze, F.P. Silva Jr., M.C.R. Cavalcanti, Semantic annotation of biological and biomedical texts based on multiple ontologies, in: Proceedings of the (X-Meeting) 7th Int. Conf. of the Braz. Ass. for Bioinformatics, and Computational Biology (AB3C), Florianópolis, 2011.
Smith, 2007, The OBO foundry: coordinated evolution of ontologies to support biomedical data integration, Nat. Biotechnol., 25, 1251, 10.1038/nbt1346
P.L. Whetzel, N.F. Noy, N. Shah, P.R. Alexander, M. Dorf, R.W. Fergerson, M.D. Storey, B. Smith, C.G. Chute, M.A. Musen, Bioportal: ontologies and integrated data resources at the click of a mouse, in: Bodenreider et al. [45]. <http://ceur-ws.org/Vol-833/paper52.pdf>.
K.T. Belloze, D.I.S.B. Monteiro, T.F. Lima, F.P. Silva Jr., M.C. Cavalcanti, Analyzing tools for biomedical text annotation with multiple ontologies, in: R. Cornet, R. Stevens, (Eds.), ICBO, CEUR Workshop Proceedings, vol. 897, CEUR-WS.org, 2012.
da Silva, 2014, Combining ontology modules for scientific text annotation, JIDM, 5, 238
Doran, 2007, Ontology module extraction for ontology reuse: an ontology engineering perspective, 61
d’Aquin, 2006, Modularization: a key for the dynamic selection of relevant knowledge components, vol. 232
M. Wei, J. Xu, T. Yu, H. Yun, A semantic annotation approach for professional literature, in: CSWS 10, 2010.
Wennerberg, 2011, Ontology modularization to improve semantic medical image annotation, J. Biomed. Inform., 44, 155, 10.1016/j.jbi.2010.12.005
P.L. Whetzel, C. Jonquet, C. Youn, M. Dorf, R.W. Fergerson, M.A. Musen, N. Shah, The NCBO annotator: Ontology-based annotation as a web service, in: Bodenreider et al. [45]. <http://ceur-ws.org/Vol-833/paper57.pdf>.
Whetzel, 2011, Bioportal: enhanced functionality via new web services from the national center for biomedical ontology to access and use ontologies in software applications, Nucleic Acids Res., 39, 541, 10.1093/nar/gkr469
Garcia, 2012, Applying graph partitioning techniques to modularize large ontologies, vol. 938, 72
Shadbolt, 2006, The semantic web revisited, IEEE Intell. Syst., 21, 96, 10.1109/MIS.2006.62
B. Popov, A. Kiryakov, D. Ognyanoff, D. Manov, A. Kirilov, M. Goranov, Towards semantic web information extraction, in: Human Language Technologies Workshop at the 2nd Int. Semantic Web Conf. (ISWC2003), Florida, USA, 2003.
Ding, 2006, Automatic creation and simplified querying of semantic web content: an approach based on information-extraction ontologies, vol. 4185, 400
C. Parent, S. Spaccapietra, An overview of modularity, in: Modular Ontologies, 2009, pp. 5–23.
S. Spaccapietra, A. Rector, A. Napoli, G. Stamou, G. Stoilos, H. Wolger, J. Pan, M. D’Aquin, V. Tzouvaras, Report on Modularization of Ontologies, Tech. Rep., 2005.
Stuckenschmidt, 2009, Structure-based partitioning of large ontologies, vol. 5445, 187
Grau, 2009
d’Aquin, 2009
Grau, 2005, Automatic partitioning of owl ontologies using e-connections, vol. 147
H. Stuckenschmidt, M. Klein, Structure-based partitioning of large concept hierarchies, in: In: Int. Semantic Web Conf., 2004, pp. 289–303.
Noy, 2009
Noy, 2004, Specifying ontology views by traversal, vol. 3298//2004, 713
J. Seidenberg, Web ontology segmentation: extraction, transformation, evaluation, in: Modular Ontologies, 2009, pp. 211–243.
Grau, 2008, Modular reuse of ontologies: theory and practice, J. Art. Int. Res. (JAIR), 31, 273
P.C. e Castro Gomes, Support for Multiple Annotation Based on Ontology Modularization: An Experience in the Biomedical Area, Master’s Thesis, Instituto Militar de Engenharia, Rio de Janeiro, 2012.<http://www.comp.ime.eb.br/images/repositorio-dissertacoes/2012-Priscilla_Gomes.pdf> (in Portuguese).
E. Oren, K.H. Mller, S. Scerri, S. Handschuh, M. Sintek, What are Semantic Annotations? Tech. Rep., DERI Galway, 2006.
Baeza-Yates, 1999
de Matos, 2010, Chebi: a chemistry ontology and database, J. Cheminformatics, 2, 6, 10.1186/1758-2946-2-S1-P6
Mungall, 2011, Evolution of the sequence ontology terms and relationships, J. Biomed. Inform., 44, 87, 10.1016/j.jbi.2010.03.002
Coulet, 2010, Using text to build semantic networks for pharmacogenomics, J. Biomed. Inform., 43, 1009, 10.1016/j.jbi.2010.08.005
Damljanovic, 2009, Ca manager framework: creating customised workflows for ontology population and semantic annotation, 177
Khelif, 2007, An ontology-based approach to support text mining and information retrieval in the biological domain, J. Univ. Comput. Sci., 13, 1881
O. Bodenreider, M.E. Martone, A. Ruttenberg, Proceedings of the 2nd International Conference on Biomedical Ontology, Buffalo, NY, USA, July 26–30, 2011 CEUR Workshop Proceedings, vol. 833, 2012 CEUR-WS.org. <http://ceur-ws.org/Vol-833>.