@inproceedings{dameron01aime,
author = {Dameron, Olivier and Gibaud, Bernard and Morandi, Xavier},
title = {Numeric and Symbolic Knowledge Representation of Cortex Anatomy Using Web Technologies},
booktitle = {Artificial Intelligence Medicine, 8th Conference on AI in Medicine in Europe, AIME 2001, Cascais, Portugal, July 1-4, 2001, Proceedings},
optcrossref = {},
optkey = {},
pages = {359--68},
year = {2001},
editor = {Silvana Quaglini and Pedro Barahona and Steen Andreassen},
volume = {2101},
optnumber = {},
series = {Lecture Notes in Computer Science},
optaddress = {},
optmonth = {},
optorganization = {},
publisher = {Springer},
optnote = {},
isbn = {3-540-42294-3},
optannote = {}
}
@inproceedings{gibaud01cars,
author = {Gibaud, Bernard and Dameron, Olivier and Morandi, Xavier},
title = {Representation and sharing of numeric and symbolic knowledge about brain cortex anatomy using web technology},
booktitle = {Computer Assisted Radiology and Surgery 2001},
optcrossref = {},
optkey = {},
pages = {356--361},
year = {2001},
editor = {HU Lemke and MW Vannier and K Inamura and AG Farman and K Doi},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
publisher = {Elsevier},
optnote = {},
optannote = {}
}
@inproceedings{dameron01sfgbm,
author = {Dameron, Olivier and Gibaud, Bernard and Morandi, Xavier},
title = {Repr\'esentation de connaissances num\'eriques et symboliques sur l'anatomie du cortex c\'er\'ebral par des technologies du web},
booktitle = {Forum du Jeune Chercheur Compi\`egne},
optcrossref = {},
optkey = {},
optpages = {},
year = {2001},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {}
}
@article{dameron04sra,
author = {Dameron, Olivier and Gibaud, Bernard and Morandi, Xavier},
title = {Numeric and Symbolic Representation of the Cerebral Cortex Anatomy: Methods and preliminary results},
journal = {Surgical and Radiologic Anatomy},
year = {2004},
optkey = {},
volume = {26},
number = {3},
pages = {191--197},
optmonth = {},
optnote = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2004sra-dameron.pdf}
}
@inproceedings{dameron02amia,
author = {Dameron, Olivier and Gibaud, Bernard and Burgun, Anita and Morandi, Xavier},
title = {Towards a sharable numeric and symbolic knowledge base on cerebral cortex anatomy: lessons from a prototype},
booktitle = {American Medical Informatics Association AMIA},
optcrossref = {},
optkey = {},
pages = {185--189},
year = {2002},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
publisher = {Hanley and Belfus},
optnote = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2002amia-dameron.pdf}
}
@article{levrel02,
author = {Levrel, JJ and Carsin-Nicol, B and Ouail-Tabourel, C and Chabert, E and Darnault, P and Gibaud, B and Dameron, O and Morandi, X},
title = {Electronic imaging with photo-realistic rendering for neuroanatomy teaching: methods and preliminary results},
journal = {Journal of Neuroradiology},
year = {2002},
optkey = {},
optvolume = {},
optnumber = {},
optpages = {},
optmonth = {},
optnote = {},
optannote = {}
}
@inproceedings{dameron03mie,
author = {Dameron, Olivier and Burgun, Anita and Morandi, Xavier and Gibaud, Bernard},
title = {Modelling dependencies between relations to insure consistency of a cerebral cortex anatomy knowledge base},
booktitle = {Studies in Health technology and informatics},
optcrossref = {},
optkey = {},
pages = {403--408},
year = {2003},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {}
}
@inproceedings{gibaud03mie,
author = {Gibaud, Bernard and Dameron, Olivier and Morandi, Xavier},
title = {Re-use of a multi-purpose knowledge corpus on cortex anatomy for educational purposes},
booktitle = {Studies in Health technology and informatics},
optcrossref = {},
optkey = {},
pages = {439--444},
year = {2003},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optannote = {}
}
@inproceedings{dameron03jws,
author = {Dameron, Olivier and Burgun, Anita and Morandi, Xavier and Gibaud, Bernard},
title = {Ontologie stratifi\'ee de l'anatomie du cortex c\'er\'ebral : application au maintien de la coh\'erence},
booktitle = {Journ\'ee Web S\'emantique, Rennes},
optcrossref = {},
optkey = {},
optpages = {},
year = {2003},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {}
}
@inproceedings{golbreich03iswc,
author = {Golbreich, Christine and Dameron, Olivier and Gibaud, Bernard and Burgun, Anita},
title = {Web ontology language requirements w.r.t expressiveness of taxononomy and axioms in medecine},
booktitle = {International Semantic Web Conference ISWC03 proceedings},
optcrossref = {},
optkey = {},
optpages = {},
year = {2003},
opteditor = {},
volume = {2870},
optnumber = {},
series = {Lecture Notes in Computer Science},
optaddress = {},
optmonth = {},
optorganization = {},
publisher = {Springer},
optnote = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2003iswc-golbreich.pdf}
}
@inproceedings{golbreich03aime,
author = {Golbreich, Christine and Dameron, Olivier and Gibaud, Bernard and Burgun, Anita},
title = {How to represent ontologies in view of a Medical Semantic Web ?},
booktitle = {AIME 03 Conference Proceedings},
optcrossref = {},
optkey = {},
pages = {51--60},
year = {2003},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {}
}
@inproceedings{golbreich03jft,
author = {Golbreich, Christine and Dameron, Olivier and Gibaud, Bernard and Burgun, Anita},
title = {Comment repr\'esenter les ontologies pour tendre vers un Web S\'emantique M\'edical ?},
booktitle = {Journ\'ees Fran{\,c}aises de la Toile},
optcrossref = {},
optkey = {},
optpages = {},
year = {2003},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
note = {},
optannote = {}
}
@inproceedings{dameron04krmed,
author = {Dameron, Olivier and Gibaud, Bernard and Musen, Mark},
title = {Using semantic dependencies for consistency management of an ontology of brain-cortex anatomy},
booktitle = {First International Workshop on Formal Biomedical Knowledge Representation KRMED04},
optcrossref = {},
optkey = {},
pages = {30--38},
year = {2004},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2004krmed-dameron.pdf},
keyword = {ontology, consistency, ontologyMaintenance}
}
@inproceedings{dameron04w3c,
author = {Dameron, Olivier and Musen, Mark A.},
title = {Accessing and manipulating Life-Sciences Ontologies Using Web Services},
booktitle = {W3C Workshop on Semantic Web for Life Sciences},
optcrossref = {},
optkey = {},
optpages = {},
year = {2004},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2004w3c-dameron.pdf},
keyword = {ontology, semanticWeb, webService, owl-s}
}
@inproceedings{dameron04iswc,
author = {Dameron, Olivier and Noy, Natalya F. and Knublauch, Holger and Musen, Mark A.},
title = {Accessing and Manipulating Ontologies Using Web Services},
booktitle = {Proceeding of the Third International Semantic Web Conference (ISWC2004), Semantic Web Services workshop},
optcrossref = {},
optkey = {},
optpages = {},
year = {2004},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2004iswc-dameron.pdf},
keyword = {ontology, semanticWeb, webService, owl-s}
}
@inproceedings{dameron04protege,
author = {Dameron, Olivier},
title = {{JOT}: a Scripting Environment for creating and managing ontologies},
booktitle = {7th International Prot\'eg\'e Conference},
optcrossref = {},
optkey = {},
optpages = {},
year = {2004},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2004protege-dameron.pdf},
keyword = {ontology, protege, script, python}
}
@inproceedings{dameron04protegeReasoning,
author = {Dameron, Olivier},
title = {Using the {JOT} plugin for reasoning with {Prot\'eg\'e}},
booktitle = {Workshop on Prot\'eg\'e and Reasoning -- 7th International Prot\'eg\'e Conference},
optcrossref = {},
optkey = {},
optpages = {},
year = {2004},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
keyword = {ontology, protege, script, python}
}
@inproceedings{barillot04didamic,
author = {Barillot, Christian and Valabregue, Romain and Matsumoto, Jean-Pierre and Aubry, Florent and Benali, Habib and Cointepas, Yann and Dameron, Olivier and Dojat, Michel and Duchesnay, E. and Gibaud, Bernard and Kinkingn\'ehun, Serge and Papadopoulos, Dimitri and Pellegrini-Issac, M\'elanie and Simon, \'Eric},
title = {Neurobase: Management of Distributed and Heterogeneous Information Sources in Neuroimaging},
booktitle = {MICCAI 2004 Conference},
optcrossref = {},
optkey = {},
pages = {85--94},
year = {2004},
editor = {Dojat, M. and Gibaud, B.},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2004didamic-barillot.pdf},
keyword = {brain, anatomy, didamic, neurobase, mediator}
}
@inproceedings{gibaud04didamic,
author = {Gibaud, Bernard and Dojat, Michel and Benali, Habib and Dameron, Olivier and Matsumoto, Jean-Pierre and Pellegrini-Issac, M\'elanie and Valabregue, Romain and Barillot, Christian},
title = {Toward an Ontology for Sharing Neuroimaging Data and Processing Methods: Experience Learned from the Development of a Demonstrator},
booktitle = {MICCAI 2004 Conference},
optcrossref = {},
optkey = {},
pages = {15--23},
year = {2004},
editor = {Dojat, M. and Gibaud, B.},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2004didamic-gibaud.pdf},
keyword = {brain, anatomy, didamic, neurobase, mediator}
}
@inproceedings{knublauch04krmed,
author = {Knublauch, Holger and Dameron, Olivier and Musen, Mark},
title = {Weaving the Biomedical Semantic Web with the {Prot\'eg\'e} {OWL} Plugin},
booktitle = {First International Workshop on Formal Biomedical Knowledge Representation KRMED04},
optcrossref = {},
optkey = {},
pages = {39--47},
year = {2004},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2004krmed-knublauch.pdf},
keyword = {owl, descriptionLogic, FMA, virtualSoldier, anatomy, protege}
}
@inproceedings{rubin04idamap,
author = {Rubin, D.L. and Dameron, O. and Bashir, Y. and Grossman, D. and Dev, P. and Musen, M.A.},
title = {Using ontologies linked with geometric models to reason about penetrating injuries},
booktitle = {Intelligent Data Analysis in Medicine and Pharmacology IDAMAP04},
optcrossref = {},
optkey = {},
optpages = {},
year = {2004},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2004idamap-rubin.pdf},
keyword = {owl, descriptionLogic, FMA, virtualSoldier, anatomy, protege}
}
@inproceedings{dameron05amia,
author = {Dameron, Olivier and Rubin, Daniel L. and Musen, Mark A.},
title = {Challenges in Converting Frame-Based Ontology into {OWL}: the {Foundational Model of Anatomy} Case-Study},
booktitle = {American Medical Informatics Association Conference AMIA05},
optcrossref = {},
optkey = {},
pages = {181--185},
year = {2005},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {accepted},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2005amia-dameron.pdf},
keyword = {owl, descriptionLogic, FMA, virtualSoldier, anatomy, protege}
}
@inproceedings{dameron05protege,
author = {Dameron, Olivier},
title = {Keeping modular and platform-independent software up-to-date: benefits from the {Semantic Web}},
booktitle = {8th International Prot\'eg\'e Conference},
optcrossref = {},
optkey = {},
optpages = {},
year = {2005},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2005protege-dameron.pdf},
keyword = {protege, semanticWeb, doap}
}
@inproceedings{gibaud05cars,
author = {Gibaud, Bernard and Dameron, Olivier and Poiseau, \'Eric and Jannin, Pierre},
title = {Implementation of atlas-matching capabilities using {Web Services} technology: lessons learned from the development of a demonstrator},
booktitle = {Computer Assisted Radiology and Surgery 2005},
optcrossref = {},
optkey = {},
optpages = {},
year = {2005},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
keyword = {brain, atlas, anatomy}
}
@inproceedings{golbreich05w3c,
author = {Golbreich, Christine and Bierlaire, Olivier and Dameron, Olivier and Gibaud, Bernard},
title = {Use Case: Ontology with Rules for identifying brain anatomical structures},
booktitle = {W3C Workshop on Rule Languages for Interoperability},
optcrossref = {},
optkey = {},
optpages = {},
year = {2005},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
keyword = {owl, descriptionLogic, rule, brain, anatomy}
}
@inproceedings{golbreich05protege,
author = {Golbreich, Christine and Bierlaire, Olivier and Dameron, Olivier and Gibaud, Bernard},
title = {What reasoning support for ontology and rules? the brain anatomy case study},
booktitle = {8th International Prot\'eg\'e Conference},
optcrossref = {},
optkey = {},
optpages = {},
year = {2005},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
keyword = {owl, descriptionLogic, rule, brain, anatomy}
}
@inproceedings{rubin05protege,
author = {Rubin, Daniel L. and Dameron, Olivier and Musen, Mark A.},
title = {Using {OWL} and {Description Logics} Based Classification for Reasoning in Biomedical Applications},
booktitle = {8th International Prot\'eg\'e Conference},
optcrossref = {},
optkey = {},
optpages = {},
year = {2005},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
keyword = {owl, descriptionLogic, FMA, virtualSoldier, anatomy}
}
@inproceedings{rubin05amia1,
author = {Rubin, Daniel L. and Dameron, Olivier and Musen, Mark A.},
title = {Use of Description Logic Classification to Reason about Consequences of Penetrating Injuries},
booktitle = {American Medical Informatics Association Conference AMIA05},
optcrossref = {},
optkey = {},
pages = {649--653},
year = {2005},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {accepted},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2005amia-rubin.pdf},
keyword = {owl, descriptionLogic, FMA, virtualSoldier, anatomy}
}
@inproceedings{dameron06protege,
author = {Dameron, Olivier and Roques, \'Elodie and Rubin, Daniel L. and Marquet, Gwena\"elle and Burgun, Anita},
title = {Grading lung tumors using {OWL-DL} based reasoning},
booktitle = {9th International Prot\'eg\'e Conference},
optcrossref = {},
optkey = {},
optpages = {},
year = {2006},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2006protege-dameron.pdf},
keyword = {nci, ontology, cancer, OWL, reasoning, TNM}
}
@article{rubin06aiim,
author = {Rubin, Daniel L. and Dameron, Olivier and Bashir, Yasser and Grossman, David and Dev, Parvati and Musen, Mark A.},
title = {Using ontologies linked with geometric models to reason about penetrating injuries},
journal = {Artificial Intelligence in Medicine},
year = {2006},
optkey = {},
volume = {37},
number = {3},
pages = {167--176},
optmonth = {},
optoptnote = {In press},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2006aiim-rubin.pdf},
keyword = {owl, descriptionLogic, FMA, virtualSoldier, anatomy, reasoning}
}
@inproceedings{chabalier06enrichissementKegg,
author = {Chabalier, Julie and Marquet, Gwena\"elle and Dameron, Olivier and Burgun, Anita},
title = {Enrichissement de la hi\'erarchie {KEGG} par l'exploitation de {Gene Ontology}},
booktitle = {Workshop OGSB, JOBIM'06},
optcrossref = {},
optkey = {},
optpages = {},
year = {2006},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {}
}
@article{dameron07aiim,
author = {Dameron, Olivier and Musen, Mark A. and Gibaud, Bernard},
title = {Using semantic dependencies for consistency management of an ontology of brain-cortex anatomy},
journal = {Artificial Intelligence in Medicine},
year = {2007},
optkey = {},
volume = {39},
number = {3},
pages = {217--225},
optmonth = {},
optnote = {In press},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2007aiim-dameron.pdf}
}
@inproceedings{dameron07protege,
author = {Dameron, Olivier and Chabalier, Julie},
title = {Automatic generation of consistency constraints for an {OWL} representation of the {FMA}},
booktitle = {10th International Prot\'eg\'e Conference},
optcrossref = {},
optkey = {},
optpages = {},
year = {2007},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2007protege-dameron.pdf}
}
@article{bertaud07journalRadiolog,
author = {Bertaud, V and Belhadj, I and Dameron, O and Garcelon, N and Hendaoui, L and Marin, F and Duvauferrier, R},
title = {L'informatisation du signe radiologique},
journal = {Journal de Radiologie},
year = {2007},
optkey = {},
volume = {88},
number = {1},
pages = {27--37},
optmonth = {},
optnote = {},
optannote = {}
}
@inproceedings{chabalier07ismb,
author = {Chabalier, Julie and Dameron, Olivier and Burgun, Anita},
title = {Integrating disease and pathway ontologies},
booktitle = {Proceedings of the ISMB conference, Poster Session},
optcrossref = {},
optkey = {},
optpages = {},
year = {2007},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {}
}
@inproceedings{chabalier07ismb2,
author = {Chabalier, Julie and Dameron, Olivier and Burgun, Anita},
title = {Integrating and querying disease and pathway ontologies: building an {OWL} model and using {RDFS} queries},
booktitle = {Bio-Ontologies Special Interest Group, Intelligent Systems for Molecular Biology conference (ISMB'07)},
optcrossref = {},
optkey = {},
optpages = {},
year = {2007},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {}
}
@inproceedings{chabalier07jobim,
author = {Chabalier, Julie and Dameron, Olivier and Burgun, Anita},
title = {Using knowledge about pathways as an organizing principle for disease ontologies},
booktitle = {Journ\'ees Ouvertes Biologie, Informatique et Math\'ematiques (JOBIM'07)},
optcrossref = {},
optkey = {},
optpages = {},
year = {2007},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {}
}
@inproceedings{marquet07amia,
author = {Marquet, Gwena\"elle and Dameron, Olivier and Saikali, Stephan and Mosser, Jean and Burgun, Anita},
title = {Grading glioma tumors using {OWL-DL} and {NCI} Thesaurus},
booktitle = {Proceedings of the American Medical Informatics Association Conference AMIA'07},
optcrossref = {},
optkey = {},
pages = {508--512},
year = {2007},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {In Press},
optannote = {}
}
@inproceedings{splendiani07ismb,
author = {Splendiani, Andrea and Beisswanger, Elena and Kim, Jung-Jae and Lee, Vivian and Dameron, Olivier and Rebholz-Schuhmann, Dietrich},
title = {Bio-Ontologies in the context of the {BOOTStrep} project},
booktitle = {Proceedings of the Bio-Ontologies SIG Workshop ISMB, (poster)},
optcrossref = {},
optkey = {},
optpages = {},
year = {2007},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {}
}
@inproceedings{dameron08dils,
author = {Dameron, Olivier and Chabalier, Julie},
title = {Bio-ontologies Tutorial},
optcrossref = {},
optkey = {},
booktitle = {Proceedings of the Data Integration In Life Science conference DILS},
pages = {208},
year = {2008},
editor = {Bairoch, A. and Cohen-Boulakia, S. and Froidevaux C.},
volume = {5109},
optnumber = {5109},
series = {LNBI},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {}
}
@inproceedings{beisswanger08mie,
author = {Beisswanger, Elena and Lee, Vivian and Kim, Jung-Jae and Rebholz-Schuhmann, Dietrich and Splendiani, Andrea and Dameron, Olivier and Schulz, Stefan and Hahn, Udo},
title = {{Gene Regulation Ontology} ({GRO}): design principles and use cases},
booktitle = {Studies in Health technology and informatics - Proceedings of the Medical Informatics in Europe conference (MIE'08)},
optcrossref = {},
optkey = {},
pages = {9--14},
year = {2008},
opteditor = {},
volume = {136},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2008mie-beisswanger.pdf},
keyword = {bootstrep, GRO}
}
@inproceedings{lebreton08jobim,
author = {Lebreton, Nicolas and Dameron, Olivier and Blanchet, Christophe and Chabalier, Julie},
title = {Utilisation d'ontologies de t\^aches et de domaine pour la composition semi-automatique de services Web bioinformatiques},
booktitle = {Proceedings of the Journ\'ees Ouvertes de Biologie, Informatique et Math\'ematiques (Jobim 2008)},
optcrossref = {},
optkey = {},
optpages = {},
year = {2008},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
note = {},
optannote = {},
optkeywords = {webServices, grid}
}
@inproceedings{roques08jobim,
author = {Roques, \'Elodie and Chabalier, Julie and Dameron, Olivier},
title = {Enrichissement s\'emantique de patrons syntaxiques pour l'am\'elioration du mapping entre voies m\'etaboliques et processus biologiques},
booktitle = {Proceedings of the Journ\'ees Ouvertes de Biologie, Informatique et math\'ematiques (Jobim 2008)},
optcrossref = {},
optkey = {},
optpages = {},
year = {2008},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
note = {},
optannote = {},
optkeywords = {ontologyMapping, Kegg, GeneOntology}
}
@inproceedings{dameron09protege,
author = {Dameron, Olivier and Bettembourg, Charles and Joret, L\'ea},
title = {Quantitative cross-species comparison of {GO} annotations: advantages and limitations of semantic similarity measure},
booktitle = {11th International Prot\'eg\'e Conference},
optcrossref = {},
optkey = {},
optpages = {},
year = {2009},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2009protege-dameron.pdf}
}
@inproceedings{grouin09jfim,
author = {Grouin, Cyril and Rosier, Arnaud and Dameron, Olivier and Zweigenbaum, Pierre},
title = {Une proc\'edure d'anonymisation \`a deux niveaux pour cr\'eer un corpus de comptes rendus hospitaliers},
booktitle = {Journ\'ees Francophones d'Informatique M\'edicale},
optcrossref = {},
optkey = {},
optpages = {},
year = {2009},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
note = {},
optannote = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2009jfim-grouin.pdf}
}
@inproceedings{grouin09mie,
author = {Grouin, Cyril and Rosier, Arnaud and Dameron, Olivier and Zweigenbaum, Pierre},
title = {Testing tactics to localize de-identification},
booktitle = {Proceedings of the Medical Informatics in Europe conference (MIE'2009)},
optcrossref = {},
optkey = {},
optpages = {},
year = {2009},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
note = {},
optannote = {}
}
@article{grouin09studHealth,
author = {Grouin, Cyril and Rosier, Arnaud and Dameron, Olivier and Zweigenbaum, Pierre},
title = {Testing tactics to localize de-identification},
journal = {Studies in health technology and informatics},
year = {2009},
optkey = {},
volume = {150},
optnumber = {},
pages = {735--739},
optmonth = {},
optnote = {},
optannote = {},
optseealso = {},
pmid = {19745408},
keyword = {}
}
@inbook{grouin09technoInfoPratiquesMedicales,
author = {Grouin, Cyril and Rosier, Arnaud and Dameron, Olivier and Zweigenbaum, Pierre},
alteditor = {},
title = {Risques, technologies de l'information pour les pratiques m\'edicales},
chapter = {Une proc\'edure d'anonymisation \`a deux niveaux pour cr\'eer un corpus de comptes-rendus hospitaliers},
publisher = {Springer-Verlag France},
year = {2009},
optkey = {},
volume = {XVII},
optnumber = {},
optseries = {},
opttype = {},
optaddress = {},
optedition = {},
optmonth = {},
optpages = {},
optnote = {},
optannote = {},
pdf = {http://www.limsi.fr/Individu/grouin/publis/Grouin_JFIM2009.pdf}
}
@inproceedings{lebreton09jobim,
author = {Lebreton, Nicolas and Blanchet, Christophe and Chabalier, Julie and Dameron, Olivier},
title = {Utilisation d'ontologies de t\^aches et de domaine pour la composition semi-automatique de services Web bioinformatiques},
booktitle = {Journ\'ees Ouvertes Biologie, Informatique et Math\'ematiques (JOBIM 2009)},
optcrossref = {},
optkey = {},
optpages = {},
year = {2009},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {}
}
@inproceedings{temal2009icbo,
author = {Temal, Lynda and Rosier, Arnaud and Dameron, Olivier and Burgun, Anita},
title = {Modeling cardiac rhythm and heart rate using {BFO} and {DOLCE}},
booktitle = {International Conference for Biomedical Ontologies},
optcrossref = {},
optkey = {},
optpages = {},
year = {2009},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {},
pdf = {http://precedings.nature.com/documents/3558/version/1/files/npre20093558-1.pdf}
}
@inproceedings{burgun2010amia,
author = {Burgun, Anita and Temal, Lynda and Rosier, Arnaud and Dameron, Olivier and Mabo, Philippe and Zweigenbaum, Pierre and Beuscart, Regis and Delerue, David and Henry Christine},
title = {Integrating clinical data with information transmitted by implantable cardiac defibrillators to support medical decision in telecardiology: the application ontology of the {AKENATON} project},
optcrossref = {},
optkey = {},
booktitle = {Proceedings of the American Medical Informatics Association Conference AMIA},
pages = {992},
year = {2010},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {}
}
@inproceedings{burgun2010medinfo,
author = {Burgun, Anita and Rosier, Arnaud and Temal, Lynda and Dameron, Olivier and Mabo, Philippe and Zweigenbaum, Pierre and Beuscart, R\'egis and Delerue, David and Henry, Christine},
title = {Supporting medical decision in telecardiology: a patient-centered ontology-based approach},
booktitle = {Medinfo 2010},
optcrossref = {},
optkey = {},
optpages = {},
year = {2010},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
note = {In press},
optannote = {}
}
@article{temal10medinfo,
author = {Temal, Lynda and Rosier, Arnaud and Dameron, Olivier and Burgun, Anita},
title = {Mapping {BFO} and {DOLCE}},
journal = {Studies in health technology and informatics},
year = {2010},
optkey = {},
volume = {160},
optnumber = {},
pages = {1065--1069},
optmonth = {},
optnote = {},
optannote = {},
optseealso = {},
pmid = {20841847},
keyword = {}
}
@inproceedings{lebreton2010,
author = {Lebreton, Nicolas and Blanchet, Christophe and Barreiro Claro, Daniela and Chabalier, Julie and Burgun, Anita and Dameron, Olivier},
title = {Verification of parameters semantic compatibility for semi-automatic Web service composition: a generic case study},
optcrossref = {},
optkey = {},
booktitle = {12th International Conference on Information Integration and Web-based Applications and Services (iiWAS2010)},
optpages = {},
year = {2010},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
note = {In press},
optannote = {}
}
@article{zaveri2010neuroinformatics,
author = {Zaveri, Amrapali and Cofiel, Luciana and Shah, Jatin and Pradhan, Shreyasee and Chan, Edwin and Dameron, Olivier and Pietrobon, Ricardo and Ang, Beng Ti},
title = {Achieving High Research Reporting Quality Through the Use of Computational Ontologies},
journal = {Neuroinformatics},
year = {2010},
optkey = {},
volume = {8},
number = {4},
pages = {261--271},
optmonth = {},
optnote = {In press},
optannote = {},
optseealso = {},
pmid = {20953737},
keyword = {},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2010neuroinformatics-zaveri.pdf}
}
@inproceedings{dameron2011amia,
author = {Dameron, Olivier and van Hille, Pascal and Temal, Lynda and Rosier, Arnaud and Del\'eger, Louise and Grouin, Cyril and Zweigenbaum, Pierre and Burgun, Anita},
title = {Comparison of {OWL} and {SWRL}-Based Ontology Modeling Strategies for the Determination of Pacemaker Alerts Severity},
optcrossref = {},
optkey = {},
booktitle = {Proceedings of the American Medical Informatics Association Conference AMIA},
optpages = {},
year = {2011},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {}
}
@inproceedings{bettembourg2011jobim,
author = {Bettembourg, Charles and Diot, Christian and Dameron, Olivier},
title = {Cross-Species Metabolic Pathways Comparison: Focus on Mouse, Human and Chicken Lipid Metabolism},
optcrossref = {},
optkey = {},
booktitle = {Journ\'ees Ouvertes Biologie, Informatique et Math\'ematiques (JOBIM 2011)},
optpages = {},
year = {2011},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
note = {In press},
optannote = {}
}
@article{burgun2011irbm,
author = {Burgun, A and Rosier, A and Temal, L and Jacques, J and Messai, R and Duchemin, L and Deleger, L and Grouin, C and Van Hille, P and Zweigenbaum, P and Beuscart, R and Delerue, D and Dameron, O and Mabo, P and Henry, C },
title = {Decision support in telecardiology: An ontology-based patient-centered approach},
journal = {IRBM},
year = {2011},
optkey = {},
volume = {32},
number = {3},
pages = {191--194},
optmonth = {},
optnote = {},
optannote = {}
}
@inproceedings{cuggia2011amia,
author = {Cuggia, Marc and Dufour, Jean-Charles and Besana, Paolo and Dameron, Olivier and Duvauferrier, Regis and Fieschi, Dominique and Bohec, Catherine and Bourd\'e, Annabel and Charlois, Laurent and Garde, Cyril and Gibaud, Isabelle and Laurent, Jean-Francois and Zekri, Oussama and Fieschi, Marius},
title = {{ASTEC}: A System for Automatic Selection of Clinical Trials},
optcrossref = {},
optkey = {},
booktitle = {Proceedings of the American Medical Informatics Association Conference AMIA},
optpages = {},
year = {2011},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {In press},
optannote = {}
}
@inproceedings{grouin2011amia,
author = {Grouin, Cyril and Del\'eger, Louise and Rosier, Arnaud and Temal, Lynda and Dameron, Olivier and van Hille, Pascal and Burgun, Anita and Zweigenbaum, Pierre},
title = {Automatic computation of {CHA2DS2-VASc} score: Information extraction from clinical texts for thromboembolism risk assessment},
optcrossref = {},
optkey = {},
booktitle = {Proceedings of the American Medical Informatics Association Conference AMIA},
pages = {501--510},
year = {2011},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {In press},
optannote = {},
pmid = {22195104},
pdf = {http://www.u936.univ-rennes1.fr/dameron/publis/2011amia-grouin.pdf}
}
@inproceedings{bettembourg2012jobim,
author = {Bettembourg, Charles and Diot, Christian and Burgun, Anita and Dameron, Olivier},
title = {{GO2PUB}: Querying {PubMed} with Semantic Expansion of Gene Ontology Terms},
optcrossref = {},
optkey = {},
booktitle = {Journ\'ees Ouvertes Biologie, Informatique et Math\'ematiques (JOBIM 2012)},
optpages = {},
year = {2012},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
optnote = {},
optannote = {}
}
@article{cuggia2012irbm,
author = {Cuggia, Marc and Dufour, Jean-Charles and Zekri, Oussama and Gibaud, Isabelle and Garde, Cyril and Bohec, Catherine and Duvauferrier, R\'egis and Fieschi, Dominique and Besana, Paolo and Charlois, Laurent and Bourd\'e, Annabel and Garcelon, Nicolas and Laurent, Jean-Francois and Fieschi, Marius and Dameron, Olivier},
title = {{ASTEC} Automatic Selection of clinical Trials based on Eligibility Criteria},
journal = {IRBM},
year = {2012},
optkey = {},
optvolume = {},
optnumber = {},
optpages = {},
optmonth = {},
optnote = {},
optannote = {}
}
@inproceedings{machno2012cars,
author = {Machno, A and Jannin, P and Dameron, O and Korb, W and Scheuermann, G and Meixensberger, J},
title = {Analysis of {MCI} evaluation studies in surgery},
optcrossref = {},
optkey = {},
booktitle = {Proceedings of the Computer Assisted Radiology and Surgery conference CARS2012},
optpages = {},
year = {2012},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
note = {In press},
optannote = {}
}
@inproceedings{vanHille2012mie,
author = {van Hille, Pascal and Jacques, Julie and Taillard, Julien and Rosier, Arnaud and Delerue, David and Burgun, Anita and Dameron, Olivier},
title = {Comparing {Drools} and Ontology-based reasoning approaches for telecardiology decision support},
optcrossref = {},
optkey = {},
booktitle = {Proceedings of the Medical Informatics in Europe conference (MIE'2012)},
optpages = {},
year = {2012},
opteditor = {},
optvolume = {},
optnumber = {},
optseries = {},
optaddress = {},
optmonth = {},
optorganization = {},
optpublisher = {},
note = {Accepted},
optannote = {}
}
This file was generated by bibtex2html 1.96.
Thu May 17 21:33:05 CEST 2012