Related papers: Ontology-based Queries over Cancer Data

Considering the evolution of the semantic wiki engine based platforms, two main approaches could be distinguished: Ontologies for Wikis (OfW) and Wikis for Ontologies (WfO). OfW vision requires existing ontologies to be imported. Most of…

Data warehouses are nowadays an important component in every competitive system, it's one of the main components on which business intelligence is based. We can even say that many companies are climbing to the next level and use a set of…

The Ontology Lookup Service (OLS) is an open source search engine for ontologies which is used extensively in the bioinformatics and chemistry communities to annotate biological and biomedical data with ontology terms. Recently there has…

Ontology-based data access (OBDA) is a novel paradigm facilitating access to relational data, realized by linking data sources to an ontology by means of declarative mappings. DL-Lite_R, which is the logic underpinning the W3C ontology…

This work presents the architecture used in the ongoing OntologyNavigator project. It is a research tool to help advanced learners to find adapted IT papers to create scientific bibliographies. The purpose is the use of an IT representation…

Bio-medical ontologies can contain a large number of concepts. Often many of these concepts are very similar to each other, and similar or identical to concepts found in other bio-medical databases. This presents both a challenge and…

This paper studies the role that ontologies can play in establishing conceptual data models during the process of information systems development. A mapping algorithm has been proposed and embedded in a special purpose Transformation-Engine…

We compare two distinct approaches for querying data in the context of the life sciences. The first approach utilizes conventional databases to store the data and intuitive form-based interfaces to facilitate easy querying of the data.…

While classical planning languages make the closed-domain and closed-world assumption, there have been various approaches to extend those with DL reasoning, which is then interpreted under the usual open-world semantics. Current approaches…

The importance of improving the FAIRness (findability, accessibility, interoperability, reusability) of research data is undeniable, especially in the face of large, complex datasets currently being produced by omics technologies.…

We show that, for OWL 2 QL ontology-mediated queries with (i) ontologies of bounded depth and conjunctive queries of bounded treewidth, (ii) ontologies of bounded depth and bounded-leaf tree-shaped conjunctive queries, and (iii) arbitrary…

Enormous explosion in the number of the World Wide Web pages occur every day and since the efficiency of most of the information processing systems is found to be less, the potential of the Internet applications is often underutilized.…

This paper addresses the challenge of improving information retrieval from semi-structured eXtensible Markup Language (XML) documents. Traditional information retrieval systems (IRS) often overlook user-specific needs and return identical…

With the rapid advancements in cancer research, the information that is useful for characterizing disease, staging tumors, and creating treatment and survivorship plans has been changing at a pace that creates challenges when physicians try…

The benefit of using ontologies, defined by the respective data standards, is shown. It is presented how ontologies can be used for the semantic enrichment of data and how this can contribute to the vision of the semantic web to become…

In ontology-based data access (OBDA), users are provided with a conceptual view of a (relational) data source that abstracts away details about data storage. This conceptual view is realized through an ontology that is connected to the data…

Data quality assessment and data cleaning are context-dependent activities. Motivated by this observation, we propose the Ontological Multidimensional Data Model (OMD model), which can be used to model and represent contexts as logic-based…

Ontology alignment is integral to achieving semantic interoperability as the number of available ontologies covering intersecting domains is increasing. This paper proposes OWL2Vec4OA, an extension of the ontology embedding system OWL2Vec*.…

We introduce ontology-mediated planning, in which planning problems are combined with an ontology. Our formalism differs from existing ones in that we focus on a strong separation of the formalisms for describing planning problems and…

Transforming relational databases into knowledge graphs with enriched ontologies enhances semantic interoperability and unlocks advanced graph-based learning and reasoning over data. However, previous approaches either demand significant…