AIMC Topic: Biological Ontologies
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IDOMEN: An Extension of Infectious Disease Ontology for MENingitis.
Studies in health technology and informatics
Aug 21, 2019
In sub-Saharan African countries the prevention and control of epidemic diseases requires the improvement of the surveillance system for these diseases. Biomedical ontologies are a growing field that can improve health information systems. Indeed bio...
Where to search top-K biomedical ontologies?
Briefings in bioinformatics
Jul 19, 2019
MOTIVATION: Searching for precise terms and terminological definitions in the biomedical data space is problematic, as researchers find overlapping, closely related and even equivalent concepts in a single or multiple ontologies. Search engines that ...
Ontologic Model of Diagnostics and Treatment of Gastrointestinal Bleedings of Unknown Origin.
Studies in health technology and informatics
Jul 4, 2019
The article presents the semantic model of diagnostics and treatment of patients with gastrointestinal bleedings when the reasons of bleeding cannot be establihed by means of a laboratory tests, endoscopy and colonoscopy.
Doc2Hpo: a web application for efficient and accurate HPO concept curation.
Nucleic acids research
Jul 2, 2019
We present Doc2Hpo, an interactive web application that enables interactive and efficient phenotype concept curation from clinical text with automated concept normalization using the Human Phenotype Ontology (HPO). Users can edit the HPO concepts aut...
A sustainable HL7 FHIR based ontology for PHR data.
Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference
Jul 1, 2019
One of the most widely acknowledged standards in health informatics is HL7 (Health Level 7 International). HL7 FHIR® (Fast Healthcare Interoperability Resources) is a new HL7 standard for exchanging electronic health data. It builds upon previous HL7...
OPA2Vec: combining formal and informal content of biomedical ontologies to improve similarity-based prediction.
Bioinformatics (Oxford, England)
Jun 1, 2019
MOTIVATION: Ontologies are widely used in biology for data annotation, integration and analysis. In addition to formally structured axioms, ontologies contain meta-data in the form of annotation axioms which provide valuable pieces of information tha...
deepBioWSD: effective deep neural word sense disambiguation of biomedical text data.
Journal of the American Medical Informatics Association : JAMIA
May 1, 2019
OBJECTIVE: In biomedicine, there is a wealth of information hidden in unstructured narratives such as research articles and clinical reports. To exploit these data properly, a word sense disambiguation (WSD) algorithm prevents downstream difficulties...
Integrating an Ontology of Radiology Differential Diagnosis with ICD-10-CM, RadLex, and SNOMED CT.
Journal of digital imaging
Apr 1, 2019
An ontology offers a human-readable and machine-computable representation of the concepts in a domain and the relationships among them. Mappings between ontologies enable the reuse and interoperability of biomedical knowledge. We sought to map concep...
Cranial Nerves: Phylogeny and Ontogeny.
Anatomical record (Hoboken, N.J. : 2007)
Mar 1, 2019
This Special Issue, entitled "Cranial Nerves: phylogeny, ontogeny, morphology and clinical significance," has been divided into two consecutive volumes. We present here the first volume, devoted to phylogeny and ontogeny. Articles in this volume exam...
MCO: towards an ontology and unified vocabulary for a framework-based annotation of microbial growth conditions.
Bioinformatics (Oxford, England)
Mar 1, 2019
MOTIVATION: A major component in increasing our understanding of the biology of an organism is the mapping of its genotypic potential into its phenotypic expression profiles. This mapping is executed by the machinery of gene regulation, which is esse...
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