SNOMED CT standard ontology based on the ontology for general medical science

BMC Medical Informatics and Decision Making
Shaker El-SappaghKyung-Sup Kwak

Abstract

Systematized Nomenclature of Medicine-Clinical Terms (SNOMED CT, hereafter abbreviated SCT) is a comprehensive medical terminology used for standardizing the storage, retrieval, and exchange of electronic health data. Some efforts have been made to capture the contents of SCT as Web Ontology Language (OWL), but these efforts have been hampered by the size and complexity of SCT. Our proposal here is to develop an upper-level ontology and to use it as the basis for defining the terms in SCT in a way that will support quality assurance of SCT, for example, by allowing consistency checks of definitions and the identification and elimination of redundancies in the SCT vocabulary. Our proposed upper-level SCT ontology (SCTO) is based on the Ontology for General Medical Science (OGMS). The SCTO is implemented in OWL 2, to support automatic inference and consistency checking. The approach will allow integration of SCT data with data annotated using Open Biomedical Ontologies (OBO) Foundry ontologies, since the use of OGMS will ensure consistency with the Basic Formal Ontology, which is the top-level ontology of the OBO Foundry. Currently, the SCTO contains 304 classes, 28 properties, 2400 axioms, and 1555 annotations. It is publicly av...Continue Reading

References

Nov 26, 2008·BMC Medical Informatics and Decision Making·Gergely HéjaPéter Varga
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Aug 26, 2015·Journal of Biomedical Informatics·W Scott CampbellJames R Campbell
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Aug 3, 2016·Computer Methods and Programs in Biomedicine·Chia-Chang ChenYu-Chuan Jack Li
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Feb 22, 2017·Journal of Biomedical Informatics·Christopher OchsYehoshua Perl
Aug 15, 2017·Computer Methods and Programs in Biomedicine·D Perez-ReyM Garcia-Remesal
Feb 8, 2018·Journal of Biomedical Semantics·Shaker El-SappaghKyung-Sup Kwak

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Citations

Sep 4, 2020·Sensors·Giuseppe LosetoCrescenzio Scioscia
Oct 15, 2019·Database : the Journal of Biological Databases and Curation·J JarczakD Strapagiel
Oct 22, 2020·JMIR Formative Research·Nicolas DelvauxMieke Vermandere
Jan 26, 2021·Database : the Journal of Biological Databases and Curation·Lauren ChanMelissa Haendel
Jan 29, 2021·Database : the Journal of Biological Databases and Curation·Lauren ChanMelissa Haendel
Nov 13, 2019·International Journal of Medical Informatics·Charlotte SiefridtMatthieu Schuers

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Methods Mentioned

BETA
biopsy

Software Mentioned

EL
BioPortal
HermiT
SWRL
Perl script
IHTSDO
+ DL
CT
Descriptive Ontology for Linguistic ( DOLCE
OWA

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