BioPortal: an open community resource for sharing, searching, and utilizing biomedical ontologies. [PDF]
Nucleic Acids ResBioPortal (https://bioportal.bioontology.org) is the world’s most comprehensive repository of biomedical ontologies. It provides infrastructure for finding, sharing, searching, and utilizing biomedical ontologies. Launched in 2005, BioPortal now includes
Vendetti J +10 more
europepmc +4 more sources
Semantic similarity in biomedical ontologies. [PDF]
PLoS Computational Biology, 2009 In recent years, ontologies have become a mainstream topic in biomedical research. When biological entities are described using a common schema, such as an ontology, they can be compared by means of their annotations.
Catia Pesquita +4 more
doaj +7 more sources
NCBO Ontology Recommender 2.0: an enhanced approach for biomedical ontology recommendation [PDF]
Journal of Biomedical Semantics, 2017 Background Ontologies and controlled terminologies have become increasingly important in biomedical research. Researchers use ontologies to annotate their data with ontology terms, enabling better data integration and interoperability across disparate ...
Marcos Martínez-Romero +5 more
doaj +9 more sources
The OBO Foundry: Coordinated Evolution of Ontologies to Support Biomedical Data Integration [PDF]
Nature Biotechnology, 2007 The value of any kind of data is greatly enhanced when it exists in a form that allows it to be integrated with other data. One approach to integration is through the annotation of multiple bodies of data using common controlled vocabularies or ...
Ashburner, Michael +17 more
core +5 more sources
Predicting the extension of biomedical ontologies. [PDF]
PLoS Computational Biology, 2012 Developing and extending a biomedical ontology is a very demanding task that can never be considered complete given our ever-evolving understanding of the life sciences.
Catia Pesquita, Francisco M Couto
doaj +5 more sources
The use of foundational ontologies in biomedical research
Journal of Biomedical Semantics, 2023 Background The FAIR principles recommend the use of controlled vocabularies, such as ontologies, to define data and metadata concepts. Ontologies are currently modelled following different approaches, sometimes describing conflicting definitions of the ...
César H. Bernabé +6 more
doaj +2 more sources
Quality assurance and enrichment of biological and biomedical ontologies and terminologies [PDF]
BMC Medical Informatics and Decision Making, 2020 Biological and biomedical ontologies and terminologies are used to organize and store various domain-specific knowledge to provide standardization of terminology usage and to improve interoperability.
Ankur Agrawal, Licong Cui
doaj +2 more sources
BiOnt: Deep Learning Using Multiple Biomedical Ontologies for Relation Extraction [PDF]
Advances in Information Retrieval42nd European Conference on IR Research, 2020 Successful biomedical relation extraction can provide evidence to researchers and clinicians about possible unknown associations between biomedical entities, advancing the current knowledge we have about those entities and their inherent mechanisms. Most
Sousa D, Couto F.
europepmc +3 more sources
Improving the interoperability of biomedical ontologies with compound alignments. [PDF]
J Biomed Semantics, 2018 Ontologies are commonly used to annotate and help process life sciences data. Although their original goal is to facilitate integration and interoperability among heterogeneous data sources, when these sources are annotated with distinct ontologies ...
Oliveira D, Pesquita C.
europepmc +2 more sources
Special supplement issue on quality assurance and enrichment of biological and biomedical ontologies and terminologies [PDF]
BMC Medical Informatics and Decision MakingOntologies and terminologies serve as the backbone of knowledge representation in biomedical domains, facilitating data integration, interoperability, and semantic understanding across diverse applications.
Licong Cui, Ankur Agrawal
doaj +2 more sources