Abstract
This paper describes a middleware for building Semantic Web applications. The main idea behind this work is to help developers build Semantic Web applications by providing them with the main components for this task. This set of components has been implemented and made available using a Web Demo tool (http://khaos.uma.es/SD-Core). In addition, this middleware has been applied to implement two Semantic Web Tools: the Khaos Ontology-based Mediator Framework (KOMF) and the Semantic Field Tool (SemFiT). In this paper we focus on KOMF that has been used to build a Semantic Tool for integrating data from biological databases.
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Leger, A., Gómez-Pérez, A., Maynard, D., Zyskowski, D., Hartmann, J., Euzenat, J., Dzbor, M., Zaremba, M., del Carmen Suárez-Figueroa, M., García-Castro, R., Palma, R., Dasiopoulou, S., Costache, S., Vitvar, T.: Architecture of the semantic web framework. Technical report (February 2007)
Navas-Delgado, I., Montañez, R., Pino-Ángeles, A., Moya-García, A.A., Urdiales, J.L., Sánchez-Jiménez, F., Aldana-Montes, J.F.: AMMO-Prot: ASP Model Finder. BMC Bioinformatics. Biomed. Central Ltd. (2008) ISSN: 1471-2105 (JCR Impact factor: 3.617)
Hartmann, J., Sure, Y., Haase, P., Palma, R., del Carmen Suarez-Figueroa, M.: Omv ontology metadata vocabulary. In: Gil, Y., Motta, E., Benjamins, V.R., Musen, M.A. (eds.) ISWC 2005, vol. 3729, Springer, Heidelberg (2005)
del Mar Roldan-Garcia, M., Aldana-Montes, J.F.: DBOWL: Towards a Scalable and Persistent OWL Reasoner. In: ICIW, pp. 174–179 (2008)
Tomasic, A., Amouroux, R., Bonnet, P., Kapitskaia, O., Naacke, H., Raschid, L.: The distributed information search component (disco) and the world wide web. In: Proceeding of the 1997ACM SIGMOD International Conference on Management of Data, pp. 546–548 (1997)
Garcia-Molina, H., Papakonstantinou, Y., Quass, D., Rajaraman, A., Sagiv, Y., Ullman, J., Vassalos, V., Widom, J.: The tsimmis aproach to mediation: Data models and languages. Journal of Intelligent Information Systems 8(2), 117–132 (1997)
Haas, L., Kossmann, D., Wimmers, E., Yang, J.: An optimizer for heterogeneous systems with nonstandard data and search capabilities. Data Engineering Bulletin 19, 37–44 (1996)
Ksiezyk, T., Martin, G., Jia, Q.: Infosleuth: Agent-based system for data integration and analysis. In: Proceedings of the 25th International Computer Software and Applicartions Conference on Invigorating Software Development, p. 474 (2001)
Beneventano, D., Bergamaschi, S., Castano, S., Corni, A., Guidetti, R., Malvezzi, G., Melchiori, M., Vincini, M.: Information integration: The momis project demonstration. In: Proceedings of the 26th Intrnational Conference on Very Large Data Bases, pp. 611–614. Morgan Kaufmann Publishers, San Francisco (2000)
BornhÄovd, C., Buchmann, a.A.P.: A prototype for metadata-based integration of internet sources. In: Jarke, M., Oberweis, A. (eds.) CAiSE 1999, vol. 1626, p. 439. Springer, Heidelberg (1999)
Mena, E., Kashyap, V., Sheth, A.P., Illarramendi, A.: OBSERVER: An approach for query processing in global information systems based on interoperation across pre-existing ontologies. In: Conference on Cooperative Information Systems, pp. 14–25 (1996)
Stevens, R., Baker, P., Bechhofer, S., Ng, G., Jacoby, A., Paton, N.W., Goble, C.A., Brass, A.: TAMBIS: Transparent access to multiple bioinformatics information sources. Bioinformatics 16, 184–186 (2000)
Lange, M., Freier, A., Scholz, U., Stephanik, A.: A computational support for access to integrated molecular biology data. In: German Conference on Bioinformatics (2001), http://www.bioinfo.de/isb/gcb01/poster/lange.html#img-1
Gupta, A., Ludascher, B., Martone, M.E.: Knowledge-based integration of neuroscience data sources. In: Proceedings of the 12th International Conference on Scientific and Statistical Database Management (SSDBM), Berlin, Germany, July 2000, IEEE Computer Society, Los Alamitos (2000)
Liu, L., Buttler, D., Critchlow, T., Han, W., Pâques, H., Pu, C., Rocco, D.: BioZoom: Exploiting source-capability information for integrated access to multiple bioinformatics data sources. In: Proceedings of the 3rd IEEE Symposium on BioInformatics and BioEngineering (BIBE 2003), Washington, DC, March 10–12, IEEE Computer Society Press, Los Alamitos (2003)
Davidson, S., Overton, C., Tannen, V., BioKleisli, W.L.: A digital library for biomedical researchers. International Journal of Digital Libraries 1, 36–53 (1997)
IBM Corp: DiscoveryLink (August 23, 2004), http://www.ibm.com/discoverylink
Aldana, J.F., Roldán-Castro, M., Navas-Delgado, I., Roldán-García, M.M., Hidalgo-Conde, M., Trelles, O.: Bio-Broker: a tool for integration of biological data sources and data analysis tools. Software: Practice and Experience 36(14), 1585–1604 (2006)
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Navas-Delgado, I., Kerzazi, A., Chniber, O., Aldana-Montes, J.F. (2008). SD-Core: A Semantic Middleware Applied to Molecular Biology. In: Meersman, R., Tari, Z., Herrero, P. (eds) On the Move to Meaningful Internet Systems: OTM 2008 Workshops. OTM 2008. Lecture Notes in Computer Science, vol 5333. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-540-88875-8_124
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DOI: https://doi.org/10.1007/978-3-540-88875-8_124
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