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OntoVIP: An Ontology for the Annotation of Object Models Used for Medical Image Simulation

Bernard Gibaud, Germain Forestier, Hugues Benoit-Cattin, Frederic Cervenansky, Patrick Clarysse, Denis Friboulet, Alban Gaignard, Patrick Hugonnard, Carole Lartizien, Herve Liebgott, Johan Montagnat, Joachim Tabary (+1 others)
2012 2012 IEEE Second International Conference on Healthcare Informatics, Imaging and Systems Biology  
This paper describes the creation of a comprehensive conceptualization of object models used in medical image simulation, suitable for major imaging modalities and simulators.  ...  The goal is to create an application ontology that can be used to annotate the models in a repository integrated in the Virtual Imaging Platform (VIP), to facilitate their sharing and reuse.  ...  CONFLICT OF INTEREST The authors declare that they do not have any conflict of interest concerning the works reported in this paper.  ... 
doi:10.1109/hisb.2012.35 dblp:conf/hisb/GibaudFBCCFGHLLMTG12 fatcat:4uxasaw5ozc5pmj37ib754ayzy

OntoVIP: An ontology for the annotation of object models used for medical image simulation

Bernard Gibaud, Germain Forestier, Hugues Benoit-Cattin, Frédéric Cervenansky, Patrick Clarysse, Denis Friboulet, Alban Gaignard, Patrick Hugonnard, Carole Lartizien, Hervé Liebgott, Johan Montagnat, Joachim Tabary (+1 others)
2014 Journal of Biomedical Informatics  
This paper describes the creation of a comprehensive conceptualization of object models used in medical image simulation, suitable for major imaging modalities and simulators.  ...  The goal is to create an application ontology that can be used to annotate the models in a repository integrated in the Virtual Imaging Platform (VIP), to facilitate their sharing and reuse.  ...  A list of terms (e.g. brain, heart), present in existing simulation models, was used to determine the concepts to extract from FMA (e.g. fma:Brain, fma:Heart).  ... 
doi:10.1016/j.jbi.2014.07.008 pmid:25038553 pmcid:PMC5943577 fatcat:33kxzx22ozgw5airtyltyfmlyi

Domain-specific summarization of Life-Science e-experiments from provenance traces

Alban Gaignard, Johan Montagnat, Bernard Gibaud, Germain Forestier, Tristan Glatard
2014 Journal of Web Semantics  
With the unprecedented growth of Life-Science data repositories, identifying relevant data for analysis becomes increasingly difficult.  ...  The instrumentation of e-Science platforms with provenance tracking techniques provide useful information from a data analysis process design or debugging perspective.  ...  We would also like to thank Olivier Corby and Catherine Faron Zucker for their support and advises regarding the Corese/KGRAM Semantic Web engine.  ... 
doi:10.1016/j.websem.2014.07.001 fatcat:imva7ugy7zdo7c6rjnpbzwpyri

A Virtual Imaging Platform for Multi-Modality Medical Image Simulation

T. Glatard, C. Lartizien, B. Gibaud, Rafael Ferreira da Silva, G. Forestier, F. Cervenansky, M. Alessandrini, H. Benoit-Cattin, O. Bernard, S. Camarasu-Pop, N. Cerezo, P. Clarysse (+8 others)
2013 IEEE Transactions on Medical Imaging  
This paper presents the Virtual Imaging Platform (VIP), a platform accessible at http://vip.creatis.insa-lyon.fr to facilitate the sharing of object models and medical image simulators, and to provide  ...  A complete overview is presented, describing the ontologies designed to share models in a common repository, the workflow template used to integrate simulators, and the tools and strategies used to exploit  ...  ACKNOWLEDGMENT This work is funded by the French National Research Agency (ANR) under grant ANR-09-COSI-03. We thank the European Grid Initiative and "France-Grilles".  ... 
doi:10.1109/tmi.2012.2220154 pmid:23014715 fatcat:rrlkowdhxvcyzhol6mlmpz6x2i

Biomedical imaging ontologies: A survey and proposal for future work

Metin Gurcan, Barry Smith, Sivaram Arabandi, Mathias Brochhausen, Michael Calhoun, Paolo Ciccarese, Scott Doyle, Bernard Gibaud, Ilya Goldberg, CharlesE Kahn, James Overton, John Tomaszewski
2015 Journal of Pathology Informatics  
An ontology is a controlled structured vocabulary consisting of general terms (such as "cell" or "image" or "tissue" or "microscope") that form the basis for such tagging.  ...  It outlines the challenges, particularly faced by ontologies in the fields of histopathological imaging and image analysis, and suggests a strategy for addressing these challenges in the example domain  ...  ACKNOWLEDGMENTS The project described was supported in part by Awards Number  ... 
doi:10.4103/2153-3539.159214 pmid:26167381 pmcid:PMC4485195 fatcat:5p4ktslvmbf25adp4ez7rxhjuq