AIMC Topic: Biological Ontologies

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The Ontology of Biological and Clinical Statistics (OBCS) for standardized and reproducible statistical analysis.

Journal of biomedical semantics Sep 14, 2016
BACKGROUND: Statistics play a critical role in biological and clinical research. However, most reports of scientific results in the published literature make it difficult for the reader to reproduce the statistical analyses performed in achieving tho...
Statistics as Topic Data Mining Reference Standards Reproducibility of Results Biological Ontologies Vaccines
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OntoBrowser: a collaborative tool for curation of ontologies by subject matter experts.

Bioinformatics (Oxford, England) Sep 6, 2016
UNLABELLED: The lack of controlled terminology and ontology usage leads to incomplete search results and poor interoperability between databases. One of the major underlying challenges of data integration is curating data to adhere to controlled term...
Software Databases, Factual Vocabulary, Controlled Biological Ontologies Data Curation Peer Review
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Knowledge Discovery from Biomedical Ontologies in Cross Domains.

PloS one Aug 22, 2016
In recent years, there is an increasing demand for sharing and integration of medical data in biomedical research. In order to improve a health care system, it is required to support the integration of data by facilitating semantic interoperability s...
Knowledge Data Mining Software Vocabulary, Controlled Biological Ontologies Semantics Biomedical Research Humans
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The Apollo Structured Vocabulary: an OWL2 ontology of phenomena in infectious disease epidemiology and population biology for use in epidemic simulation.

Journal of biomedical semantics Aug 18, 2016
BACKGROUND: We developed the Apollo Structured Vocabulary (Apollo-SV)-an OWL2 ontology of phenomena in infectious disease epidemiology and population biology-as part of a project whose goal is to increase the use of epidemic simulators in public heal...
Epidemics Biological Ontologies Software Models, Statistical Communicable Diseases Humans
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Using AberOWL for fast and scalable reasoning over BioPortal ontologies.

Journal of biomedical semantics Aug 8, 2016
BACKGROUND: Reasoning over biomedical ontologies using their OWL semantics has traditionally been a challenging task due to the high theoretical complexity of OWL-based automated reasoning. As a consequence, ontology repositories, as well as most oth...
Time Factors Biological Ontologies Semantics
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Towards natural language question generation for the validation of ontologies and mappings.

Journal of biomedical semantics Aug 8, 2016
BACKGROUND: The increasing number of open-access ontologies and their key role in several applications such as decision-support systems highlight the importance of their validation. Human expertise is crucial for the validation of ontologies from a d...
Natural Language Processing Feasibility Studies Biological Ontologies
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A method for exploring implicit concept relatedness in biomedical knowledge network.

BMC bioinformatics Jul 19, 2016
BACKGROUND: Biomedical information and knowledge, structural and non-structural, stored in different repositories can be semantically connected to form a hybrid knowledge network. How to compute relatedness between concepts and discover valuable but ...
Semantics Knowledge Biological Ontologies
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The ontology of medically related social entities: recent developments.

Journal of biomedical semantics Jul 12, 2016
BACKGROUND: The Ontology of Medically Related Social Entities (OMRSE) was initially developed in 2011 to provide a framework for modeling demographic data in Resource Description Framework/Web Ontology Language. It is built upon the Basic Formal Onto...
Marital Status Humans Demography Socioeconomic Factors Health Facilities Insurance Biological Ontologies
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COMODI: an ontology to characterise differences in versions of computational models in biology.

Journal of biomedical semantics Jul 11, 2016
BACKGROUND: Open model repositories provide ready-to-reuse computational models of biological systems. Models within those repositories evolve over time, leading to different model versions. Taken together, the underlying changes reflect a model's pr...
Internet Biological Ontologies Models, Biological
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NeuroRDF: semantic integration of highly curated data to prioritize biomarker candidates in Alzheimer's disease.

Journal of biomedical semantics Jul 8, 2016
BACKGROUND: Neurodegenerative diseases are incurable and debilitating indications with huge social and economic impact, where much is still to be learnt about the underlying molecular events. Mechanistic disease models could offer a knowledge framewo...
Biological Ontologies Semantics Gene Expression Profiling Biomarkers Alzheimer Disease Data Mining Humans
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