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Using Semantic Web Technologies for Clinical Trial Recruitment [chapter]

Paolo Besana, Marc Cuggia, Oussama Zekri, Annabel Bourde, Anita Burgun
2010 Lecture Notes in Computer Science  
We use a domain specific ontology to represent data from patients' health records and we use SWRL to verify the eligibility of patients to clinical trials.  ...  Recruitment is done by matching the eligibility criteria of trials to patient conditions.  ...  Acknowledgments We are grateful to Olivier Dameron and Fiona McNeill for their valuable comments. The project was funded by the French National Agency of research (ANR) under the TECSAN program 2008.  ... 
doi:10.1007/978-3-642-17749-1_3 fatcat:qsdxcvo47fgp3pxd3ldcecioqa

Implementation of an ontological reasoning to support the guideline-based management of primary breast cancer patients in the DESIREE project

Jacques Bouaud, Sylvia Pelayo, Jean-Baptiste Lamy, Coralie Prebet, Charlotte Ngo, Luis Teixeira, Gilles Guézennec, Brigitte Seroussi
2020 Artificial Intelligence in Medicine  
The BCKM is formalized as an ontology including both the data model to represent clinical patient information and the termino-ontological model to represent the application domain concepts.  ...  build complete care plans from the reconciliation of atomic recommendations.  ...  The authors would like to thank all the partners of the DESIREE project, especially the clinicians from Onkologikoa, Ander Urruticoechea Ribate, Jon Belloso Linacisoro, and Gerardo Cajaraville Ordonana  ... 
doi:10.1016/j.artmed.2020.101922 pmid:32972655 fatcat:ikjyreevavbbnlcgafkpfccwgq

Integrating Multimodal Radiation Therapy Data into i2b2

Jean-Emmanuel Bibault, Philippe Giraud, Anita Burgun, Eric Zapletal
2018 Applied Clinical Informatics  
therapy data, including detailed information such as the DVH to create new ontology-based modules that provides research investigators with a wider spectrum of clinical data.  ...  We were able to use the radiation therapy data on a preliminary use case by fetching the DVH curve data from the clinical data warehouse and displaying them in a R chart.  ...  Acknowledgment The authors are thankful to Arnaud Bernard, Alain Fauconnet, and Odile Taugourdeau for their valuable support regarding access to radiation therapy material.  ... 
doi:10.1055/s-0038-1651497 pmid:29847842 pmcid:PMC5976493 fatcat:j5dzfdnufbbwnirpmyeb4ep3fu

SIBM at CLEF eHealth Evaluation Lab 2016: Extracting Concepts in French Medical Texts with ECMT and CIMIND

Chloé Cabot, Lina Soualmia, Badisse Dahamna, Stéfan Darmoni
The extraction method is available online in the form a web-based service that requests the KOS to extract clinical concepts from Electronic Health Records.  ...  It is also available via a user-friendly interface developed for clinicians.  ...  ECMT is developed to index EHRs via a web-based service and also via a user-friendly interface. The actual version of ECMT (v3) is optimized to process around 70,000 EHR per day.  ... 

Cross border semantic interoperability for clinical research: the EHR4CR semantic resources and services

Christel Daniel, David Ouagne, Eric Sadou, Kerstin Forsberg, Mark Mc Gilchrist, Eric Zapletal, Nicolas Paris, Sajjad Hussain, Marie-Christine Jaulent, Dipka Kalra Md
The experience gained from the evaluation of the EHR4CR platform accessing to semantically equivalent data elements across 11 European participating EHR systems from 5 countries demonstrated how far the  ...  Developers of semantic interoperability platforms are beginning to address a core set of requirements in order to reach the goal of developing cross border semantic integration of data.  ...  Acknowledgements: We thank the members of EHR4CR WPG2 for their contribution to the design and development of the EHR4CR semantic interoperability platform.  ... 
pmid:27570649 pmcid:PMC5001763 fatcat:hhl43kdghrgixpiwxn6dpcifra

Health—exploring complexity: an interdisciplinary systems approach HEC2016

Eva Grill, Martin Müller, Ulrich Mansmann
2016 European Journal of Epidemiology  
The German UMLS database and German OpenNLP models extended the natural language processing pipeline, so the pipeline can normalize to domain ontologies such as SNOMED-CT using German UMLS concepts.  ...  Current research has mainly concentrated on event recognition through concept mapping using from medical ontologies (UMLS, SNOMED CT) and gene relation detection in the biological context.  ...  We applied well-known text classification methods described in [7, 8] to determine the relevance via SVMs.  ... 
doi:10.1007/s10654-016-0183-1 pmid:27522353 fatcat:dcl3nbpygvh5fg7keri74h55ie

Constructing and applying semantic models of clinical phenotypes to support web-embedded clinical research

Soroush Samadian
Envisioning ontologies as hypothetical, contextual and subjective is a notable departure from the commonly-held view in the life-sciences, where ontologies (ostensibly) represent some "universal truth"  ...  However, though there are numerous examples of bio-ontologies being used to describe "what is" (i.e., a universal view of reality), there is a dearth of examples where ontologies are used to describe "  ...  Additionally, FMA, UMLS, and NCI have been used extensively for inference-based decision supports For instance the OWL version of NCI thesaurus has been used for automatic grading of brain tumors [249  ... 
doi:10.14288/1.0073941 fatcat:leo37vuywna2rh5flxmlrat7ru


In order to integrate dispersed pieces of knowledge, which is distributed across assorted research domains and knowledgebases, ontology engineers need to deal with the heterogeneity of terminological,  ...  by information technologies and ontology engineering methods.  ...  NCI, SNOMED), metathesaurus (UMLS), and biomedical classifications such as the International Classification of Disease (ICD) 49 , with OBO Foundry ontologies and other formal ontologies such as General  ... 
doi:10.13130/sojic-aleksandra_phd2013-03-04 fatcat:dy7gotvgancldplfvnw7cs2p74

Uniformed Services University of the Health Sciences

Petre Dini, Pascal Lorenz, Charlie Abela, Dana Al Kukhun, Giner Alor Hernández, Instituto Tecnológico De Orizaba -Veracruz, Jean Bacon, Hrvoje Belani, Mounir Bousbia-Salah, Badji Mokhtar University -Annaba, Algeria Briggs, Michel Cotsaftis (+52 others)
in Venice, Italy, took a global perspective on population health, from national to crosscountry approaches, multiplatform technologies, from drug design to medicine accessibility, everything under mobile  ...  We also kindly thank all the authors who dedicated much of their time and efforts to contribute to GLOBAL HEALTH 2012.  ...  to do this study.  ...