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Distributed Biomedical Terminology Development: From Experiments to Open Process

C. G. Chute
2010 IMIA Yearbook of Medical Informatics  
Results: The trajectory of description logic-driven authoring tools, group process, and web-based platforms suggests that public distributed authoring is likely feasible and practical; however, no compelling  ...  Objective: Can social computing efforts materially alter the distributed creation and maintenance of complex biomedical terminologies and ontologies; a review of distributed authoring history and status  ...  Chute Chairs the ICD-11 Revision Steering Committee, and is grateful for the input and advise of the World Health Organization.  ... 
doi:10.1055/s-0038-1638690 fatcat:q6ngwv23avdslehajt2vnvefyq

Profiling ICD-11 Terminological Content Using the Common Terminology Services 2 (CTS2) Standard

Guoqian Jiang, Harold R. Solbrig, Can Celik, Bedirhan Üstün, Christopher G. Chute
2014 International Conference on Biomedical Ontology  
The emerging Common Terminology Services 2 (CTS2) standard provides a common model and semantics for representation, interchange, and federation of terminological resources.  ...  The mapping effort was used to develop a prototype of the CTS2 Services Wrapper for the ICD-11.  ...  ACKNOWLEDGMENT This work is partly supported by a Mayo-WHO Contract 200822195-1.  ... 
dblp:conf/icbo/JiangSCUC14 fatcat:afjxmiy47rfpbeiahc3kxwrc5q

Building Standardized Semantic Web RESTful Services to Support ICD-11 Revision

Guoqian Jiang, Harold R. Solbrig, Christopher G. Chute
2012 Workshop on Semantic Web Applications and Tools for Life Sciences  
We performed a preliminary evaluation on the usefulness of the system in terms of the feasibility of the services and its potential in support of building the Common Terminology Services 2 (CTS2) compliant  ...  We used the Linked Data API and developed simple RESTful services for the standardized ICD-11 contents.  ...  Acknowledgement The authors would like to thank two experienced web developers: Kevin Peterson and Cory Endle and two CTS2 experts: Craig Stancl, Harold Solbrig, who participated in the evaluation of the  ... 
dblp:conf/swat4ls/JiangSC12 fatcat:fvf3uo43gjaztegurrs7dj7j7i

Towards a Rule-based Support System for the Coding of Health Conditions in the Patient Summary

Elena Cardillo, Maria Teresa Chiaravalloti, Claudio Eccher, Erika Pasceri, Vincenzo Della Mea, Lucilla Frattura, Roberto Guarasci
2015 International Semantic Web Conference  
To overcome this issue, a support system based on standardized and formalized coding rules for the domain of application is proposed, to facilitate a more accurate coding process without breaking the law  ...  The literature shows that the practice of coding is recognized as a difficult task for GPs and it often generates coding errors and misspecifications of clinical data.  ...  Digital Italy (AgID) and by the Seman-ticHealthNet Expert Agreement (prot. 0008991).  ... 
dblp:conf/semweb/CardilloCEPMFG15 fatcat:4joiotmaane77m7cjbaidlx6xa

Health Concept and Knowledge Management: Twenty-five Years of Evolution

R. Cornet, C. G. Chute
2016 IMIA Yearbook of Medical Informatics  
Objectives: The fields of health terminology, classification, ontology, and related information models have evolved dramatically over the past 25 years.  ...  Results: The transformation in size, scope, complexity, and adoption of health terminological systems and information models has been tremendous, on the scale of orders of magnitude.  ...  A subset of SNOMED CT was designated as the Common Ontology, and provides the semantic backbone for the Foundation Component, which, while not yet fully populated, has demonstrated methodology and utility  ... 
doi:10.15265/iys-2016-s037 pmid:27488404 pmcid:PMC5171511 fatcat:vufq7o2uhfdvjfyiuoukz24m4q

A Lexical-Ontological Resource for Consumer Heathcare [chapter]

Elena Cardillo
2009 Lecture Notes in Computer Science  
The system is based on the development of a consumer-oriented medical terminology which will be integrated with other existing domain ontologies/terminologies into a medical ontology repository.  ...  Following this direction, this work suggests a way to support the design of an ontologybased system that mitigates this gap, using knowledge engineering and Semantic Web technologies.  ...  [13] ), and for their integration by means of medical ontology repositories, such as the creation of Bio-Portal, a Web-based system that serves as a repository for biomedical ontologies [10] .  ... 
doi:10.1007/978-3-642-04930-9_60 fatcat:6y4jfqsblfhp3o2p6f5brrzz6e

The CEN ISO Standard Categorial Structure as a Top-Level Set of Constraints for Ontology Disambiguation

Jean Marie Rodrigues, Stefan Schulz, Cédric Bousquet, Julien Souvignet
2012 International Conference on Biomedical Ontology  
Since 2000 methods, tools and techniques based on upper level ontology and description logic formalism have been developed in the Semantic Web and the bio-ontology communities.  ...  The objective of this paper is to analyse the relation between the two approaches in order to promote the complementary use of ontology and structured information model tools in the harmonisation between  ...  This can contribute to the WHO/IHTSDO Joint Advisory Group (JAG) works on a common ontological basis for the Foundation Component (FC) of ICD 11 and SNOMED CT.  ... 
dblp:conf/icbo/RodriguesSBS12 fatcat:pe3wg2mft5bvzb4pegenrjcafi

Medical Vocabulary, Terminological Resources and Information Coding in the Health Domain [chapter]

C. Duclos, A. Burgun, J. B. Lamy, P. Landais, J. M. Rodrigues, L. Soualmia, P. Zweigenbaum
2013 Health Informatics Series  
ICD 10, SNOMED CT, and MeSH are among the terminologies used in the examples.  ...  Terminological resources are specific representations of medical language for dedicated use in particular health domains.  ...  The SNOMED CT ontology is a terminological system increasingly widely adopted by developers of health information systems and is one of the cited terminological references for the implementation of interoperability  ... 
doi:10.1007/978-2-8178-0478-1_2 fatcat:eertyjzbmvblrojubtmrvhyw2e

Semantic Social Networks for Integrated Healthcare [chapter]

Eleni Kaldoudi, Nikolas Dovrolis
2013 IFIP Advances in Information and Communication Technology  
The paper discusses a blending of notions of social networks and semantic technologies in order to develop comprehensive personalized and dynamic models of the chronic comorbid patient, their environment  ...  An important aspect of integrated care is the provision of personalized patient empowerment and decision support services, especially in case of the chronic patient with comorbidities.  ...  This work has been funded in part by the Project HELCOHOP: Development of Electronic Clinical Protocols, 2012-2015, MIS 375876, co-funded by European and National funds.  ... 
doi:10.1007/978-3-642-40543-3_76 fatcat:se6lq22txrfu7ermyxou25rgei

Formalizing ICD coding rules using Formal Concept Analysis

Guoqian Jiang, Jyotishman Pathak, Christopher G. Chute
2009 Journal of Biomedical Informatics  
Objectives: To explore the role of Formal Concept Analysis (FCA) on examining ICD10 coding rules and to develop FCA-based auditing approaches for the formalization process.  ...  Conclusion: FCA-based models demonstrate a practical solution for formalizing ICD coding rules.  ...  Buntrock for their input and support. Finally, the authors are grateful to the reviewers for their insightful and constructive criticism, which materially improved this work.  ... 
doi:10.1016/j.jbi.2009.02.005 pmid:19236957 fatcat:egyz2ul45veo3hftrmsxinyjpi

IMIA LaMB WG related event: Proceedings of 3rd International Conference on Biomedical Ontology, 2012, Graz

Ronald Cornet, Robert Stevens, Melanie Courtot, Trish Whetzel, Janna Hastings, Stefan Schulz, Ludger Jansen
2019 Zenodo  
This conference carried on the tradition of discussing medical ontologies, increasingly used in biology and medicine, and their use in annotation of both clinical and experimental data is now a common  ...  It brings together representatives of all major communities involved in the development and application of ontologies in biomedical research ...  ...  While these ontologies are independently developed, the concurrent use of them within the MGI system illuminates some challenges in the intersection of ontologies that MGI ontology developers and curators  ... 
doi:10.5281/zenodo.3381830 fatcat:pnndilxgzzbujnoqz7pytggtdi

Developing a modular architecture for creation of rule-based clinical diagnostic criteria

Na Hong, Jyotishman Pathak, Christopher G. Chute, Guoqian Jiang
2016 BioData Mining  
Using the DCUO, we developed a transformation tool that converts QDM-based diagnostic criteria into Semantic Web Rule Language (SWRL) representation.  ...  In this study, we present a modular architecture for enabling the creation of rule-based clinical diagnostic criteria leveraging Semantic Web technologies.  ...  Acknowledgments This work is supported in part by funding from: caCDE-QA (U01 CA180940), PhEMA (R01 GM105688) and a Mayo-WHO Contract 200822195-1.  ... 
doi:10.1186/s13040-016-0113-5 pmid:27785153 pmcid:PMC5073928 fatcat:obaabnfhfffkjkwqo5sugdvwmm

Axioms & templates

Alan Rector
2013 Proceedings of the seventh international conference on Knowledge capture - K-CAP '13  
As a step towards a more coordinated approach to knowledge-rich systems and a platform for incorporating additional technologies, we propose factoring systems into "ontology (narrow sense)", the rest of  ...  The relationships between "ontologies", knowledge bases, and information models -and correspondingly between OWL/Description Logics, frames and UML -remains confusing to many developers.  ...  Our thanks to the Description Logic and Clinical Systems Groups at University of Manchester and to the IHTSDO-WHO Joint Advisory Group on integration of SNOMED CT and ICD11.  ... 
doi:10.1145/2479832.2479840 dblp:conf/kcap/Rector13 fatcat:mvaczom3tja53d52k36qmiwcqi

Educational Resources as Social Objects in Semantic Social Networks

Eleni Kaldoudi, Nikolas Dovrolis, Daniela Giordano, Stefan Dietze
2011 Extended Semantic Web Conference  
These social facets include: (a) the obvious connections via common tags; (b) connections based on collective usage and other related interaction of human users; (c) social connections based on the inheritance  ...  This paper exploits the various aspects of object-centered sociality that the educational resource can manifest in a participatory virtual community of authors and learners.  ...  accessible, usable and exploitable.  ... 
dblp:conf/esws/KaldoudiDGD11 fatcat:vjlabn4vp5f6tiuwnpmferpamm

Monogenetic Rare Diseases in Biomedical Databases and Text Mining [article]

Anastasia P. Nesterova, Eugene Klimov, Sergey Sozin, Vladimir Sobolev, Peter Linsley, Pavel K Golovatenko-Abramov
2022 medRxiv   pre-print
The developed algorithm allows for the collection of published facts in a unified format starting only with the name of the disease.  ...  A special template, which combines research and clinical descriptions of diseases was developed. The approach was tested, and information was collected for 55 rare monogenic diseases.  ...  2021, https://meshb.nlm.nih.gov/, DO -Disease Ontology, https://disease-ontology.org/); or private companies (SNOMED, MedDra) .  ... 
doi:10.1101/2022.04.07.22273575 fatcat:didh7xb6nne7di3n2tckvv3kli