AIMC Topic: Biological Ontologies
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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
Oct 31, 2014
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
Oct 27, 2014
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
Oct 16, 2014
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
Aug 21, 2014
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
Jul 11, 2014
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
Jul 4, 2014
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
Apr 29, 2014
INTRODUCTION: This article is part of the Focus Theme of METHODS of Information in Medicine on "Managing Interoperability and Complexity in Health Systems".
Integrating Knowledge: The Power of Ontologies in Psychiatric Research and Clinical Informatics.
Biological psychiatry
Aug 15, 2025
Ontologies are structured frameworks for representing knowledge by systematically defining concepts, categories, and their relationships. While widely adopted in biomedicine, ontologies remain largely absent in mental health research and clinical car...
Human in the Loop: Embedding Medical Expert Input in Large Language Models for Clinical Applications.
Studies in health technology and informatics
Aug 7, 2025
The state-of-the-art performance of large language models (LLMs) in medical natural language (NLP) tasks, including medical query answering, summarization of clinical notes, and generation of medical reports has led to the development of a large numb...
BioPortal: an open community resource for sharing, searching, and utilizing biomedical ontologies.
Nucleic acids research
Jul 7, 2025
BioPortal (https://bioportal.bioontology.org) is the world's most comprehensive repository of biomedical ontologies. It provides infrastructure for finding, sharing, searching, and utilizing biomedical ontologies. Launched in 2005, BioPortal now incl...
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