AIMC Topic: Biological Ontologies

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SSDOnt: An Ontology for Representing Single-Subject Design Studies.

Methods of information in medicine Apr 5, 2018
BACKGROUND: Single-Subject Design is used in several areas such as education and biomedicine. However, no suited formal vocabulary exists for annotating the detailed configuration and the results of this type of research studies with the appropriate ...
Molecular Sequence Annotation Humans Biological Ontologies Search Engine Research Design Autistic Disorder
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Matching biomedical ontologies based on formal concept analysis.

Journal of biomedical semantics Mar 19, 2018
BACKGROUND: The goal of ontology matching is to identify correspondences between entities from different yet overlapping ontologies so as to facilitate semantic integration, reuse and interoperability. As a well developed mathematical model for analy...
Algorithms Vocabulary, Controlled Phenotype Biological Ontologies
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Design and validation of an ontology-driven animal-free testing strategy for developmental neurotoxicity testing.

Toxicology and applied pharmacology Mar 13, 2018
Developmental neurotoxicity entails one of the most complex areas in toxicology. Animal studies provide only limited information as to human relevance. A multitude of alternative models have been developed over the years, providing insights into mech...
Biological Ontologies Cells, Cultured Humans Signal Transduction Animal Testing Alternatives Brain Animals Toxicology Models, Animal Neurons Reproducibility of Results Neurogenesis Risk Assessment Toxicity Tests Neurotoxicity Syndromes
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An efficient, large-scale, non-lattice-detection algorithm for exhaustive structural auditing of biomedical ontologies.

Journal of biomedical informatics Mar 13, 2018
One of the basic challenges in developing structural methods for systematic audition on the quality of biomedical ontologies is the computational cost usually involved in exhaustive sub-graph analysis. We introduce ANT-LCA, a new algorithm for comput...
Algorithms Data Mining Biological Ontologies Medical Informatics Systematized Nomenclature of Medicine
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A Functional Signature Ontology (FUSION) screen detects an AMPK inhibitor with selective toxicity toward human colon tumor cells.

Scientific reports Feb 28, 2018
AMPK is a serine threonine kinase composed of a heterotrimer of a catalytic, kinase-containing α and regulatory β and γ subunits. Here we show that individual AMPK subunit expression and requirement for survival varies across colon cancer cell lines....
Humans Cell Line, Tumor Biological Ontologies Drug Screening Assays, Antitumor Biological Products AMP-Activated Protein Kinases Protein Kinase Inhibitors Cell Survival Colonic Neoplasms
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OBO to UML: Support for the development of conceptual models in the biomedical domain.

Journal of biomedical informatics Feb 27, 2018
A conceptual model abstractly defines a number of concepts and their relationships for the purposes of understanding and communication. Once a conceptual model is available, it can also be used as a starting point for the development of a software sy...
Biological Ontologies Unified Medical Language System Humans Models, Theoretical
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Assessing the practice of biomedical ontology evaluation: Gaps and opportunities.

Journal of biomedical informatics Feb 17, 2018
With the proliferation of heterogeneous health care data in the last three decades, biomedical ontologies and controlled biomedical terminologies play a more and more important role in knowledge representation and management, data integration, natura...
Quality Assurance, Health Care Medical Informatics Biological Ontologies Semantics Humans Electronic Health Records
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An ontology-driven clinical decision support system (IDDAP) for infectious disease diagnosis and antibiotic prescription.

Artificial intelligence in medicine Feb 9, 2018
BACKGROUND: The available antibiotic decision-making systems were developed from a physician's perspective. However, because infectious diseases are common, many patients desire access to knowledge via a search engine. Although the use of antibiotics...
Drug Therapy, Computer-Assisted Biological Ontologies Drug Prescriptions Bacterial Infections Predictive Value of Tests Humans Reproducibility of Results Anti-Bacterial Agents Diagnosis, Computer-Assisted Clinical Decision-Making ROC Curve Machine Learning User-Computer Interface Decision Support Systems, Clinical Decision Support Techniques
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Supporting shared hypothesis testing in the biomedical domain.

Journal of biomedical semantics Feb 8, 2018
BACKGROUND: Pathogenesis of inflammatory diseases can be tracked by studying the causality relationships among the factors contributing to its development. We could, for instance, hypothesize on the connections of the pathogenesis outcomes to the obs...
Inflammation Computer Graphics Biological Ontologies
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DMTO: a realistic ontology for standard diabetes mellitus treatment.

Journal of biomedical semantics Feb 6, 2018
BACKGROUND: Treatment of type 2 diabetes mellitus (T2DM) is a complex problem. A clinical decision support system (CDSS) based on massive and distributed electronic health record data can facilitate the automation of this process and enhance its accu...
Biological Ontologies Internet Semantics Diabetes Mellitus, Type 2
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