A pragmatic approach to semantic repositories benchmarking

The aim of this paper is to benchmark various semantic repositories in order to evaluate their deployment in a commercial image retrieval and browsing application. We adopt a two-phase approach for evaluating the target semantic repositories: analytical parameters such as query language and reasoning support are used to select the pool of the target repositories, and practical parameters such as load and query response times are used to select the best match to application requirements. In addition to utilising a widely accepted benchmark for OWL repositories (UOBM), we also use a real-life dataset from the target application, which provides us with the opportunity of consolidating our findings. A distinctive advantage of this benchmarking study is that the essential requirements for the target system such as the semantic expressivity and data scalability are clearly defined, which allows us to claim contribution to the benchmarking methodology for this class of applications

Ontology of core data mining entities

In this article, we present OntoDM-core, an ontology of core data mining entities. OntoDM-core defines themost essential datamining entities in a three-layered ontological structure comprising of a specification, an implementation and an application layer. It provides a representational framework for the description of mining structured data, and in addition provides taxonomies of datasets, data mining tasks, generalizations, data mining algorithms and constraints, based on the type of data. OntoDM-core is designed to support a wide range of applications/use cases, such as semantic annotation of data mining algorithms, datasets and results; annotation of QSAR studies in the context of drug discovery investigations; and disambiguation of terms in text mining. The ontology has been thoroughly assessed following the practices in ontology engineering, is fully interoperable with many domain resources and is easy to extend

vSPARQL: A View Definition Language for the Semantic Web

Translational medicine applications would like to leverage the biological and biomedical ontologies, vocabularies, and data sets available on the semantic web. We present a general solution for RDF information set reuse inspired by database views. Our view definition language, vSPARQL, allows applications to specify the exact content that they are interested in and how that content should be restructured or modified. Applications can access relevant content by querying against these view definitions. We evaluate the expressivity of our approach by defining views for practical use cases and comparing our view definition language to existing query languages

Leveraging Semantic Web Technologies for Managing Resources in a Multi-Domain Infrastructure-as-a-Service Environment

This paper reports on experience with using semantically-enabled network resource models to construct an operational multi-domain networked infrastructure-as-a-service (NIaaS) testbed called ExoGENI, recently funded through NSF's GENI project. A defining property of NIaaS is the deep integration of network provisioning functions alongside the more common storage and computation provisioning functions. Resource provider topologies and user requests can be described using network resource models with common base classes for fundamental cyber-resources (links, nodes, interfaces) specialized via virtualization and adaptations between networking layers to specific technologies. This problem space gives rise to a number of application areas where semantic web technologies become highly useful - common information models and resource class hierarchies simplify resource descriptions from multiple providers, pathfinding and topology embedding algorithms rely on query abstractions as building blocks. The paper describes how the semantic resource description models enable ExoGENI to autonomously instantiate on-demand virtual topologies of virtual machines provisioned from cloud providers and are linked by on-demand virtual connections acquired from multiple autonomous network providers to serve a variety of applications ranging from distributed system experiments to high-performance computing

Aberdeen University Ontology Reuse Stack

Postprin

LiteMat: a scalable, cost-efficient inference encoding scheme for large RDF graphs

The number of linked data sources and the size of the linked open data graph keep growing every day. As a consequence, semantic RDF services are more and more confronted with various "big data" problems. Query processing in the presence of inferences is one them. For instance, to complete the answer set of SPARQL queries, RDF database systems evaluate semantic RDFS relationships (subPropertyOf, subClassOf) through time-consuming query rewriting algorithms or space-consuming data materialization solutions. To reduce the memory footprint and ease the exchange of large datasets, these systems generally apply a dictionary approach for compressing triple data sizes by replacing resource identifiers (IRIs), blank nodes and literals with integer values. In this article, we present a structured resource identification scheme using a clever encoding of concepts and property hierarchies for efficiently evaluating the main common RDFS entailment rules while minimizing triple materialization and query rewriting. We will show how this encoding can be computed by a scalable parallel algorithm and directly be implemented over the Apache Spark framework. The efficiency of our encoding scheme is emphasized by an evaluation conducted over both synthetic and real world datasets.Comment: 8 pages, 1 figur

MIREOT: the Minimum Information to Reference an External Ontology Term

While the Web Ontology Language (OWL) provides a mechanism to import ontologies, this mechanism is not always suitable. First, given the current state of editing tools and the issues they have working with large ontologies, direct OWL imports have sometimes proven impractical for day-to-day development. Second, ontologies chosen for integration may be under active development and not aligned with the chosen design principles. Importing heterogeneous ontologies in their entirety may lead to inconsistencies or unintended inferences. In this paper we propose a set of guidelines for importing required terms from an external resource into a target ontology. We describe the guidelines, their implementation, present some examples of application, and outline future work and extensions

Application of Semantics to Solve Problems in Life Sciences

Fecha de lectura de Tesis: 10 de diciembre de 2018La cantidad de información que se genera en la Web se ha incrementado en los últimos años. La mayor parte de esta información se encuentra accesible en texto, siendo el ser humano el principal usuario de la Web. Sin embargo, a pesar de todos los avances producidos en el área del procesamiento del lenguaje natural, los ordenadores tienen problemas para procesar esta información textual. En este cotexto, existen dominios de aplicación en los que se están publicando grandes cantidades de información disponible como datos estructurados como en el área de las Ciencias de la Vida. El análisis de estos datos es de vital importancia no sólo para el avance de la ciencia, sino para producir avances en el ámbito de la salud. Sin embargo, estos datos están localizados en diferentes repositorios y almacenados en diferentes formatos que hacen difícil su integración. En este contexto, el paradigma de los Datos Vinculados como una tecnología que incluye la aplicación de algunos estándares propuestos por la comunidad W3C tales como HTTP URIs, los estándares RDF y OWL. Haciendo uso de esta tecnología, se ha desarrollado esta tesis doctoral basada en cubrir los siguientes objetivos principales: 1) promover el uso de los datos vinculados por parte de la comunidad de usuarios del ámbito de las Ciencias de la Vida 2) facilitar el diseño de consultas SPARQL mediante el descubrimiento del modelo subyacente en los repositorios RDF 3) crear un entorno colaborativo que facilite el consumo de Datos Vinculados por usuarios finales, 4) desarrollar un algoritmo que, de forma automática, permita descubrir el modelo semántico en OWL de un repositorio RDF, 5) desarrollar una representación en OWL de ICD-10-CM llamada Dione que ofrezca una metodología automática para la clasificación de enfermedades de pacientes y su posterior validación haciendo uso de un razonador OWL