AIMC Topic: Biological Ontologies
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Perspectives on next steps in classification of oro-facial pain - part 1: role of ontology.
Journal of oral rehabilitation
Jul 25, 2015
The purpose of this study was to review existing principles of oro-facial pain classifications and to specify design recommendations for a new system that would reflect recent insights in biomedical classification systems, terminologies and ontologie...
Combining expert knowledge and knowledge automatically acquired from electronic data sources for continued ontology evaluation and improvement.
Journal of biomedical informatics
Jul 23, 2015
INTRODUCTION: A common bottleneck during ontology evaluation is knowledge acquisition from domain experts for gold standard creation. This paper contributes a novel semi-automated method for evaluating the concept coverage and accuracy of biomedical ...
Using ontologies to improve semantic interoperability in health data.
Journal of innovation in health informatics
Jul 10, 2015
The present-day health data ecosystem comprises a wide array of complex heterogeneous data sources. A wide range of clinical, health care, social and other clinically relevant information are stored in these data sources. These data exist either as s...
In this issue: Ontologies a key concept in informatics and key for open definitions of cases, exposures, and outcome measures.
Journal of innovation in health informatics
Jul 10, 2015
A literature-driven method to calculate similarities among diseases.
Computer methods and programs in biomedicine
Jul 9, 2015
BACKGROUND: "Our lives are connected by a thousand invisible threads and along these sympathetic fibers, our actions run as causes and return to us as results". It is Herman Melville's famous quote describing connections among human lives. To paraphr...
Analysis of the human diseasome using phenotype similarity between common, genetic, and infectious diseases.
Scientific reports
Jun 8, 2015
Phenotypes are the observable characteristics of an organism arising from its response to the environment. Phenotypes associated with engineered and natural genetic variation are widely recorded using phenotype ontologies in model organisms, as are s...
Summarizing and visualizing structural changes during the evolution of biomedical ontologies using a Diff Abstraction Network.
Journal of biomedical informatics
Jun 3, 2015
Biomedical ontologies are a critical component in biomedical research and practice. As an ontology evolves, its structure and content change in response to additions, deletions and updates. When editing a biomedical ontology, small local updates may ...
Interactive Cohort Identification of Sleep Disorder Patients Using Natural Language Processing and i2b2.
Applied clinical informatics
May 27, 2015
UNLABELLED: Nationwide Children's Hospital established an i2b2 (Informatics for Integrating Biology & the Bedside) application for sleep disorder cohort identification. Discrete data were gleaned from semistructured sleep study reports. The system sh...
Toward Synthesizing Our Knowledge of Morphology: Using Ontologies and Machine Reasoning to Extract Presence/Absence Evolutionary Phenotypes across Studies.
Systematic biology
May 26, 2015
The reality of larger and larger molecular databases and the need to integrate data scalably have presented a major challenge for the use of phenotypic data. Morphology is currently primarily described in discrete publications, entrenched in noncompu...
A formal concept analysis and semantic query expansion cooperation to refine health outcomes of interest.
BMC medical informatics and decision making
May 20, 2015
BACKGROUND: Electronic Health Records (EHRs) are frequently used by clinicians and researchers to search for, extract, and analyze groups of patients by defining Health Outcome of Interests (HOI). The definition of an HOI is generally considered a co...
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