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10. KA-SB: from data integration to large scale reasoning

Author

Aldana-Montes José F, Molina-Castro Joaquín, Chniber Othmane, Kerzazi Amine, Navas-Delgado Ismael, and Roldán-García María del Mar

Subjects
Computer applications to medicine. Medical informatics, R858-859.7, Biology (General), QH301-705.5
Abstract

Abstract Background The analysis of information in the biological domain is usually focused on the analysis of data from single on-line data sources. Unfortunately, studying a biological process requires having access to disperse, heterogeneous, autonomous data sources. In this context, an analysis of the information is not possible without the integration of such data. Methods KA-SB is a querying and analysis system for final users based on combining a data integration solution with a reasoner. Thus, the tool has been created with a process divided into two steps: 1) KOMF, the Khaos Ontology-based Mediator Framework, is used to retrieve information from heterogeneous and distributed databases; 2) the integrated information is crystallized in a (persistent and high performance) reasoner (DBOWL). This information could be further analyzed later (by means of querying and reasoning). Results In this paper we present a novel system that combines the use of a mediation system with the reasoning capabilities of a large scale reasoner to provide a way of finding new knowledge and of analyzing the integrated information from different databases, which is retrieved as a set of ontology instances. This tool uses a graphical query interface to build user queries easily, which shows a graphical representation of the ontology and allows users o build queries by clicking on the ontology concepts. Conclusion These kinds of systems (based on KOMF) will provide users with very large amounts of information (interpreted as ontology instances once retrieved), which cannot be managed using traditional main memory-based reasoners. We propose a process for creating persistent and scalable knowledgebases from sets of OWL instances obtained by integrating heterogeneous data sources with KOMF. This process has been applied to develop a demo tool http://khaos.uma.es/KA-SB, which uses the BioPax Level 3 ontology as the integration schema, and integrates UNIPROT, KEGG, CHEBI, BRENDA and SABIORK databases.

Published
2009
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13. Additional file 3 of Dione: An OWL representation of ICD-10-CM for classifying patients’ diseases

Author

Roldán-García, María Del Mar, García-Godoy, María, and Aldana-Montes, José

Subjects
TheoryofComputation_MATHEMATICALLOGICANDFORMALLANGUAGES, TheoryofComputation_LOGICSANDMEANINGSOFPROGRAMS, ComputingMethodologies_SYMBOLICANDALGEBRAICMANIPULATION, MathematicsofComputing_GENERAL, ComputingMethodologies_DOCUMENTANDTEXTPROCESSING
Abstract

Including OWL axioms in Dione. PDF file containing the algorithm for obtaining axioms from SNOMED CT/ICD-10-CM mappings and for adding these axioms to Dione. (PDF 73 kb)

Published
2016
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14. DisMatch results for OAEI 2016

Author

Rybinski, Maciej, Roldán García, María del Mar, García Nieto, José Manuel, Aldana Montes, José F., Universidad de Sevilla. Departamento de Ciencias de la Computación e Inteligencia Artificial, Ministerio de Educación y Ciencia (MEC). España, and Junta de Andalucía

Subjects
Bench-marking, Lexical Semantic Relatedness, Ontology Matching
Abstract

DisMatch is an experimental ontology matching system based on the use of corpus based distributional measure for approximating se- mantic relatedness. Through the use of a domain-related corpus, the measure can be applied to a problem focused on the domain of the cor- pus, here being the Disease and Phenotype track. In this paper, we aim to briefly present the proposed approach and the results obtained in the evaluation, as well as some early conclusions regarding the performance of DisMatch. Ministerio de Educación y Ciencia TIN2014-58304-R Junta de Andalucía P11-TIC-7529 Junta de Andalucía P12-TIC-1519

Published
2016

15. Un Repositorio RDF para la Integración de Flujos de Datos de Analítica Web y Comercio Electrónico

Author

Roldán García, María del Mar, García Nieto, José Manuel, Aldana Montes, José F., and Universidad de Sevilla. Departamento de Ciencias de la Computación e Inteligencia Artificial

Subjects
Google Analytics, Ontologías, Integraciónn de datos, RDF, Análisis Web
Abstract

La Analítica Web supone hoy en día una tarea ineludible para las empresas de comercio electrónico, ya que les permite analizar el comportamiento de sus clientes. El proyecto Europeo SME-Ecompass tiene como objetivo desarrollar herramientas avanzadas de análitica web accesibles para las PYMES. Con esta motivación, proponemos servicio de integración de datos basado en ontologías para recopilar, integrar y almacenar información de traza web procedente de distintas fuentes. Estas se consolidan en un Repositorio RDF diseñado para proporcionar semántica común a los datos de análisis y dar servicio homogéneo a algoritmos de Minería de Datos. El servicio propuesto se ha validado mediante traza digital real (Google Analitics y Piwik) de 15 tiendas virtuales de diferentes sectores y países europeos (UK, España, Grecia y Alemania) durante varios meses de actividad.

Published
2016

20. Additional file 6 of Dione: An OWL representation of ICD-10-CM for classifying patients’ diseases

Author

Roldán-García, María Del Mar, García-Godoy, María, and Aldana-Montes, José

Subjects
Physics::Fluid Dynamics, TheoryofComputation_MATHEMATICALLOGICANDFORMALLANGUAGES, TheoryofComputation_LOGICSANDMEANINGSOFPROGRAMS, ComputingMethodologies_DOCUMENTANDTEXTPROCESSING
Abstract

Classification of Dione. PDF file containing the algorithm for including the axioms defining a class in the definition of its subclasses. (PDF 68 kb)

Published
2016
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21. Additional file 7 of Dione: An OWL representation of ICD-10-CM for classifying patients’ diseases

Author

Roldán-García, María Del Mar, García-Godoy, María, and Aldana-Montes, José

Subjects
TheoryofComputation_MATHEMATICALLOGICANDFORMALLANGUAGES, ComputingMethodologies_DOCUMENTANDTEXTPROCESSING
Abstract

Classification of Dione. PDF file containing the algorithm for including the owl:someValuesFrom statement from the definition of sibling subclasses in the definition of their superclass. (PDF 68 kb)

Published
2016
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