AIMC Topic: Biological Ontologies

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Report of the HIMSS-SIIM Enterprise Imaging Community Data Standards Evaluation Workgroup: Anatomic Ontology Assessment.

Journal of imaging informatics in medicine
Previously, the lack of a standard body part ontology has been identified as a critical deficiency needed to enable enterprise imaging. This whitepaper aims to provide a comprehensive assessment of anatomical ontologies with the aim of facilitating e...

On the relationship between scientific theory and ontology in everything flows.

History and philosophy of the life sciences
In their anthology Everything Flows: Towards a Processual Philosophy of Biology, Daniel J. Nicholson and John Dupré argue that modern theories of biology imply that the fundamental structure of reality is processual at its core. In the present work, ...

Homeostasis imbalance process ontology: a study on COVID-19 infectious processes.

BMC medical informatics and decision making
BACKGROUND: One significant challenge in addressing the coronavirus disease 2019 (COVID-19) pandemic is to grasp a comprehensive picture of its infectious mechanisms. We urgently need a consistent framework to capture the intricacies of its complicat...

MRIO: the Magnetic Resonance Imaging Acquisition and Analysis Ontology.

Neuroinformatics
Magnetic resonance imaging of the brain is a useful tool in both the clinic and research settings, aiding in the diagnosis and treatments of neurological disease and expanding our knowledge of the brain. However, there are many challenges inherent in...

Ontological representation, modeling, and analysis of parasite vaccines.

Journal of biomedical semantics
BACKGROUND: Pathogenic parasites are responsible for multiple diseases, such as malaria and Chagas disease, in humans and livestock. Traditionally, pathogenic parasites have been largely an evasive topic for vaccine design, with most successful vacci...

Bayesian-knowledge driven ontologies: A framework for fusion of semantic knowledge under uncertainty and incompleteness.

PloS one
The modeling of uncertain information is an open problem in ontology research and is a theoretical obstacle to creating a truly semantic web. Currently, ontologies often do not model uncertainty, so stochastic subject matter must either be normalized...

Developing an ontology of non-pharmacological treatment for emotional and mood disturbances in dementia.

Scientific reports
Emotional and mood disturbances are common in people with dementia. Non-pharmacological interventions are beneficial for managing these disturbances. However, effectively applying these interventions, particularly in the person-centred approach, is a...

Development and application of Chinese medical ontology for diabetes mellitus.

BMC medical informatics and decision making
OBJECTIVE: To develop a Chinese Diabetes Mellitus Ontology (CDMO) and explore methods for constructing high-quality Chinese biomedical ontologies.

Coordinating virus research: The Virus Infectious Disease Ontology.

PloS one
The COVID-19 pandemic prompted immense work on the investigation of the SARS-CoV-2 virus. Rapid, accurate, and consistent interpretation of generated data is thereby of fundamental concern. Ontologies-structured, controlled, vocabularies-are designed...