AIMC Topic: Semantic Web
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Enabling semantic queries across federated bioinformatics databases.
Database : the journal of biological databases and curation
Jan 1, 2019
MOTIVATION: Data integration promises to be one of the main catalysts in enabling new insights to be drawn from the wealth of biological data available publicly. However, the heterogeneity of the different data sources, both at the syntactic and the ...
How to Develop a Drug Target Ontology: KNowledge Acquisition and Representation Methodology (KNARM).
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2019
Technological advancements in many fields have led to huge increases in data production, including data volume, diversity, and the speed at which new data is becoming available. In accordance with this, there is a lack of conformity in the ways data ...
Linking Health Records with Knowledge Sources Using OWL and RDF.
Studies in health technology and informatics
Jan 1, 2019
This paper describes a method by which the Web Ontology Language (OWL) can be used to specify a highly structured health record, following internationally recognised standards such as ISO 13606 and HL7 CDA. The structured record is coded using scheme...
The anatomy of phenotype ontologies: principles, properties and applications.
Briefings in bioinformatics
Sep 28, 2018
The past decade has seen an explosion in the collection of genotype data in domains as diverse as medicine, ecology, livestock and plant breeding. Along with this comes the challenge of dealing with the related phenotype data, which is not only large...
UMLS to DBPedia link discovery through circular resolution.
Journal of the American Medical Informatics Association : JAMIA
Jul 1, 2018
OBJECTIVE: The goal of this work is to map Unified Medical Language System (UMLS) concepts to DBpedia resources using widely accepted ontology relations from the Simple Knowledge Organization System (skos:exactMatch, skos:closeMatch) and from the Res...
Radiation Oncology Terminology Linker: A Step Towards a Linked Data Knowledge Base.
Studies in health technology and informatics
Jan 1, 2018
Performing image feature extraction in radiation oncology is often dependent on the organ and tumor delineations provided by clinical staff. These delineation names are free text DICOM metadata fields resulting in undefined information, which require...
Deep mining heterogeneous networks of biomedical linked data to predict novel drug-target associations.
Bioinformatics (Oxford, England)
Aug 1, 2017
MOTIVATION: A heterogeneous network topology possessing abundant interactions between biomedical entities has yet to be utilized in similarity-based methods for predicting drug-target associations based on the array of varying features of drugs and t...
Actionable, long-term stable and semantic web compatible identifiers for access to biological collection objects.
Database : the journal of biological databases and curation
Jan 1, 2017
UNLABELLED: With biodiversity research activities being increasingly shifted to the web, the need for a system of persistent and stable identifiers for physical collection objects becomes increasingly pressing. The Consortium of European Taxonomic Fa...
Datamining with Ontologies.
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2016
The use of ontologies has increased rapidly over the past decade and they now provide a key component of most major databases in biology and biomedicine. Consequently, datamining over these databases benefits from considering the specific structure a...
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