AIMC Topic: Biological Ontologies

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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....
Colonic Neoplasms Biological Ontologies Protein Kinase Inhibitors Drug Screening Assays, Antitumor AMP-Activated Protein Kinases Biological Products Cell Survival Humans Cell Line, Tumor
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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...
Humans Models, Theoretical Unified Medical Language System Biological Ontologies
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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...
Medical Informatics Semantics Electronic Health Records Quality Assurance, Health Care Biological Ontologies Humans
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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...
Machine Learning Decision Support Techniques Anti-Bacterial Agents Humans Drug Prescriptions Drug Therapy, Computer-Assisted ROC Curve Decision Support Systems, Clinical Predictive Value of Tests Biological Ontologies Bacterial Infections Diagnosis, Computer-Assisted User-Computer Interface Clinical Decision-Making Reproducibility of Results
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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 Biological Ontologies Computer Graphics
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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...
Internet Semantics Biological Ontologies Diabetes Mellitus, Type 2
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Labeling for Big Data in radiation oncology: The Radiation Oncology Structures ontology.

PloS one Jan 19, 2018
PURPOSE: Leveraging Electronic Health Records (EHR) and Oncology Information Systems (OIS) has great potential to generate hypotheses for cancer treatment, since they directly provide medical data on a large scale. In order to gather a significant am...
Models, Anatomic Radiation Oncology Information Systems Paris Radiotherapy Planning, Computer-Assisted Humans Information Storage and Retrieval Electronic Health Records Systems Integration Biological Ontologies Software Neoplasms
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OpenBiodiv-O: ontology of the OpenBiodiv knowledge management system.

Journal of biomedical semantics Jan 18, 2018
BACKGROUND: The biodiversity domain, and in particular biological taxonomy, is moving in the direction of semantization of its research outputs. The present work introduces OpenBiodiv-O, the ontology that serves as the basis of the OpenBiodiv Knowled...
Biological Ontologies Classification Biodiversity Semantics
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MIRO: guidelines for minimum information for the reporting of an ontology.

Journal of biomedical semantics Jan 18, 2018
BACKGROUND: Creation and use of ontologies has become a mainstream activity in many disciplines, in particular, the biomedical domain. Ontology developers often disseminate information about these ontologies in peer-reviewed ontology description repo...
Biological Ontologies Surveys and Questionnaires Guidelines as Topic Research Design
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Brain maps 4.0-Structure of the rat brain: An open access atlas with global nervous system nomenclature ontology and flatmaps.

The Journal of comparative neurology Jan 17, 2018
The fourth edition (following editions in 1992, 1998, 2004) of Brain maps: structure of the rat brain is presented here as an open access internet resource for the neuroscience community. One new feature is a set of 10 hierarchical nomenclature table...
Brain Animals Neural Pathways Rats Brain Mapping Biological Ontologies Humans Terminology as Topic
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