AIMC Topic: Biological Ontologies
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Patient safety classifications, taxonomies and ontologies: A systematic review on development and evaluation methodologies.
Journal of biomedical informatics
Jul 22, 2022
INTRODUCTION: Patient safety classifications/ontologies enable patient safety information systems to receive and analyze patient safety data to improve patient safety. Patient safety classifications/ontologies have been developed and evaluated using ...
Performance assessment of ontology matching systems for FAIR data.
Journal of biomedical semantics
Jul 15, 2022
BACKGROUND: Ontology matching should contribute to the interoperability aspect of FAIR data (Findable, Accessible, Interoperable, and Reusable). Multiple data sources can use different ontologies for annotating their data and, thus, creating the need...
Toward a standard formal semantic representation of the model card report.
BMC bioinformatics
Jul 14, 2022
BACKGROUND: Model card reports aim to provide informative and transparent description of machine learning models to stakeholders. This report document is of interest to the National Institutes of Health's Bridge2AI initiative to address the FAIR chal...
Anatomy and the type concept in biology show that ontologies must be adapted to the diagnostic needs of research.
Journal of biomedical semantics
Jun 27, 2022
BACKGROUND: In times of exponential data growth in the life sciences, machine-supported approaches are becoming increasingly important and with them the need for FAIR (Findable, Accessible, Interoperable, Reusable) and eScience-compliant data and met...
A vector-based semantic relatedness measure using multiple relations within SNOMED CT and UMLS.
Journal of biomedical informatics
Jun 9, 2022
OBJECTIVE: To propose a new vector-based relatedness metric that derives word vectors from the intrinsic structure of biomedical ontologies, without consulting external resources such as large-scale biomedical corpora.
An automated process for supporting decisions in clustering-based data analysis.
Computer methods and programs in biomedicine
Mar 24, 2022
BACKGROUND AND OBJECTIVE: Metrics are commonly used by biomedical researchers and practitioners to measure and evaluate properties of individuals, instruments, models, methods, or datasets. Due to the lack of a standardized validation procedure for a...
The Xenopus phenotype ontology: bridging model organism phenotype data to human health and development.
BMC bioinformatics
Mar 22, 2022
BACKGROUND: Ontologies of precisely defined, controlled vocabularies are essential to curate the results of biological experiments such that the data are machine searchable, can be computationally analyzed, and are interoperable across the biomedical...
Design and Evaluation of a Postpartum Depression Ontology.
Applied clinical informatics
Mar 9, 2022
OBJECTIVE: Postpartum depression (PPD) remains an understudied research area despite its high prevalence. The goal of this study is to develop an ontology to aid in the identification of patients with PPD and to enable future analyses with electronic...
A multipurpose TNM stage ontology for cancer registries.
Journal of biomedical semantics
Feb 22, 2022
BACKGROUND: Population-based cancer registries are a critical reference source for the surveillance and control of cancer. Cancer registries work extensively with the internationally recognised TNM classification system used to stage solid tumours, b...
Semantic Search for Large Scale Clinical Ontologies.
AMIA ... Annual Symposium proceedings. AMIA Symposium
Feb 21, 2022
Finding concepts in large clinical ontologies can be challenging when queries use different vocabularies. A search algorithm that overcomes this problem is useful in applications such as concept normalisation and ontology matching, where concepts can...
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