AIMC Topic: Biological Ontologies

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Exploiting Semantic Web Technologies to Develop OWL-Based Clinical Practice Guideline Execution Engines.

IEEE journal of biomedical and health informatics
Computerizing paper-based CPG and then executing them can provide evidence-informed decision support to physicians at the point of care. Semantic web technologies especially web ontology language (OWL) ontologies have been profusely used to represent...

Recognizing lexical and semantic change patterns in evolving life science ontologies to inform mapping adaptation.

Artificial intelligence in medicine
BACKGROUND: Mappings established between life science ontologies require significant efforts to maintain them up to date due to the size and frequent evolution of these ontologies. In consequence, automatic methods for applying modifications on mappi...

ADReCS: an ontology database for aiding standardization and hierarchical classification of adverse drug reaction terms.

Nucleic acids research
Adverse drug reactions (ADRs) are noxious and unexpected effects during normal drug therapy. They have caused significant clinical burden and been responsible for a large portion of new drug development failure. Molecular understanding and in silico ...

BiobankConnect: software to rapidly connect data elements for pooled analysis across biobanks using ontological and lexical indexing.

Journal of the American Medical Informatics Association : JAMIA
OBJECTIVE: Pooling data across biobanks is necessary to increase statistical power, reveal more subtle associations, and synergize the value of data sources. However, searching for desired data elements among the thousands of available elements and h...

Disease Ontology 2015 update: an expanded and updated database of human diseases for linking biomedical knowledge through disease data.

Nucleic acids research
The current version of the Human Disease Ontology (DO) (http://www.disease-ontology.org) database expands the utility of the ontology for the examination and comparison of genetic variation, phenotype, protein, drug and epitope data through the lens ...

Quantifying care coordination using natural language processing and domain-specific ontology.

Journal of the American Medical Informatics Association : JAMIA
OBJECTIVE: This research identifies specific care coordination activities used by Aging in Place (AIP) nurse care coordinators and home healthcare (HHC) nurses when coordinating care for older community-dwelling adults and suggests a method to quanti...

Evaluating the state of the art in disorder recognition and normalization of the clinical narrative.

Journal of the American Medical Informatics Association : JAMIA
OBJECTIVE: The ShARe/CLEF eHealth 2013 Evaluation Lab Task 1 was organized to evaluate the state of the art on the clinical text in (i) disorder mention identification/recognition based on Unified Medical Language System (UMLS) definition (Task 1a) a...

An ontology-based annotation of cardiac implantable electronic devices to detect therapy changes in a national registry.

IEEE journal of biomedical and health informatics
The patient population benefitting from cardiac implantable electronic devices (CIEDs) is increasing. This study introduces a device annotation method that supports the consistent description of the functional attributes of cardiac devices and evalua...

Prioritising lexical patterns to increase axiomatisation in biomedical ontologies. The role of localisation and modularity.

Methods of information in medicine
INTRODUCTION: This article is part of the Focus Theme of METHODS of Information in Medicine on "Managing Interoperability and Complexity in Health Systems".

Toward a view-oriented approach for aligning RDF-based biomedical repositories.

Methods of information in medicine
INTRODUCTION: This article is part of the Focus Theme of METHODS of Information in Medicine on "Managing Interoperability and Complexity in Health Systems".