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Human Development Domain of the Ontology of Craniofacial Development and Malformation. 颅面发育和畸形本体的人类发展领域。

CEUR workshop proceedings Pub Date : 2013-07-01

Jose Lv Mejino, Ravensara S Travillian, Timothy C Cox, Linda G Shapiro, James F Brinkley

{"title":"Human Development Domain of the Ontology of Craniofacial Development and Malformation.","authors":"Jose Lv Mejino, Ravensara S Travillian, Timothy C Cox, Linda G Shapiro, James F Brinkley","doi":"","DOIUrl":"","url":null,"abstract":"In this paper we describe an ontological scheme for representing anatomical entities undergoing morphological transformation and changes in phenotype during prenatal development. This is a proposed component of the Anatomical Transformation Abstraction (ATA) of the Foundational Model of Anatomy (FMA) Ontology that was created to provide an ontological framework for capturing knowledge about human development from the zygote to postnatal life. It is designed to initially describe the structural properties of the anatomical entities that participate in human development and then enhance their description with developmental properties, such as temporal attributes and developmental processes. This approach facilitates the correlation and integration of the classical but static representation of embryology with the evolving novel concepts of developmental biology, which primarily deals with the experimental data on the mechanisms of embryogenesis and organogenesis. This is important for describing and understanding the underlying processes involved in structural malformations. In this study we focused on the development of the lips and the palate in conjunction with our work on the pathogenesis and classification of cleft lip and palate (CL/P) in the FaceBase program. Our aim here is to create the Craniofacial Human Development Ontology (CHDO) to support the Ontology of Craniofacial Development and Malformation (OCDM), which provides the infrastructure for integrating multiple and disparate craniofacial data generated by FaceBase researchers.","PeriodicalId":72554,"journal":{"name":"CEUR workshop proceedings","volume":"1060 ","pages":"74-77"},"PeriodicalIF":0.0,"publicationDate":"2013-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5331931/pdf/nihms711379.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"34783867","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Towards a Consistent and Scientifically Accurate Drug Ontology. 实现一致且科学准确的药物本体论。

CEUR workshop proceedings Pub Date : 2013-01-01

William R Hogan, Josh Hanna, Eric Joseph, Mathias Brochhausen

{"title":"Towards a Consistent and Scientifically Accurate Drug Ontology.","authors":"William R Hogan, Josh Hanna, Eric Joseph, Mathias Brochhausen","doi":"","DOIUrl":"","url":null,"abstract":"Our use case for comparative effectiveness research requires an ontology of drugs that enables querying National Drug Codes (NDCs) by active ingredient, mechanism of action, physiological effect, and therapeutic class of the drug products they represent. We conducted an ontological analysis of drugs from the realist perspective, and evaluated existing drug terminology, ontology, and database artifacts from (1) the technical perspective, (2) the perspective of pharmacology and medical science (3) the perspective of description logic semantics (if they were available in Web Ontology Language or OWL), and (4) the perspective of our realism-based analysis of the domain. No existing resource was sufficient. Therefore, we built the Drug Ontology (DrOn) in OWL, which we populated with NDCs and other classes from RxNorm using only content created by the National Library of Medicine. We also built an application that uses DrOn to query for NDCs as outlined above, available at: http://ingarden.uams.edu/ingredients. The application uses an OWL-based description logic reasoner to execute end-user queries. DrOn is available at http://code.google.com/p/dr-on.","PeriodicalId":72554,"journal":{"name":"CEUR workshop proceedings","volume":"1060 ","pages":"68-73"},"PeriodicalIF":0.0,"publicationDate":"2013-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5111807/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141285544","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

LexRDF Model: An RDF-based Unified Model for Heterogeneous Biomedical Ontologies. LexRDF模型:基于rdf的异构生物医学本体统一模型。

CEUR workshop proceedings Pub Date : 2009-10-26

Cui Tao, Jyotishman Pathak, Harold R Solbrig, Wei-Qi Wei, Christopher G Chute

{"title":"LexRDF Model: An RDF-based Unified Model for Heterogeneous Biomedical Ontologies.","authors":"Cui Tao, Jyotishman Pathak, Harold R Solbrig, Wei-Qi Wei, Christopher G Chute","doi":"","DOIUrl":"","url":null,"abstract":"The Lexical Grid (LexGrid) project is an on-going community-driven initiative coordinated by the Mayo Clinic Division of Biomedical Statistics and Informatics (BSI). It provides a common terminology model to represent multiple vocabulary and ontology sources as well as a scalable and robust API for accessing such information. While successfully used and adopted in the biomedical and clinical community, an important requirement is to align the existing LexGrid model with emerging Semantic Web standards and specifications. This paper introduces the LexRDF model, which maps the LexGrid model elements to corresponding constructs in W3C specifications such as RDF, OWL, and SKOS. Our mapping specification successfully used W3C standards to represent most of the existing LexGrid components, and those that did not map point out issues in the existing specifications that the W3C may want to consider in future work. With LexRDF, the terminological information represented in LexGrid can be translated to RDF triples, and therefore allowing LexGrid to leverage standard tools and technologies such as SPARQL and RDF triple stores.","PeriodicalId":72554,"journal":{"name":"CEUR workshop proceedings","volume":"521 ","pages":"3"},"PeriodicalIF":0.0,"publicationDate":"2009-10-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3146261/pdf/nihms233713.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"30045863","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

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