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2012 1 Publication internationale Rollin, L. & Gehanno, J.-F.. Research on return to work in European Union countries. Occupational Medicine , January, 2012.
Abstract: Background Research on return to work (RTW) is increasing. It is important to benefit from studies originating from different countries since certain factors influencing the RTW process are specific to each country.Aims To compare RTW research in Europe with the USA and to describe research on RTW in Europe.Methods Medline was scanned with specific search strings to identify studies concerning RTW in Europe, in the USA and in the rest of the world. Characteristics of the European studies were analyzed with two specific tools for bibliometrics research.Results Four thousand five hundred and twenty-five studies were identified (1100, 1005 and 2420 coming from Europe, the USA and the rest of the world, respectively). The European countries producing the greatest number of research papers standardized for population of that country were Sweden, the Netherlands, Finland and Denmark. Sweden was 5.7 times more prolific than the USA. Specialties covered by the European publications included occupational medicine (the subject of 66% of the articles), neurology (36, environment and public health (32, physical medicine and rehabilitation (26 and rheumatology (24.Conclusions There is a worldwide trend upwards in the number of publications on RTW. Europe recently overtook the USA in the number of publications per head of population, although there were large differences in publication rates among the European countries. The publications of European researchers on RTW are spread over a wide variety of journals, making access to this research difficult.
BibTeX: @article{Rollin2012, author = {Rollin, L. and Gehanno, {J.-F.}}, title = {Research on return to work in European Union countries}, month = {January}, journal = {Occupational Medicine}, year = {2012}, url = {http://occmed.oxfordjournals.org/content/early/2012/01/12/occmed.kqr207.abstract}, doi = {10.1093/occmed/kqr207} }
3 Communication internationale Darmoni, SJ; Grosjean, J; Merabti, T; Griffon, N; Dahamna, B & Dutoit, D. Combining WordNet and Crosslingual multi-terminology health portal to access health information. 6th International Global Wordnet Conference (GWC2012), Matsue, Japan, January, 2012.
BibTeX: @inproceedings{Darmoni2012, author = {Darmoni, SJ and Grosjean, J and Merabti, T and Griffon, N and Dahamna, B and Dutoit, D}, title = {Combining WordNet and Crosslingual multi-terminology health portal to access health information}, booktitle = {6th International Global Wordnet Conference (GWC2012)}, address = {Matsue, Japan}, month = {January}, year = {2012} }
3 Communication internationale Grosjean, J; Kerdelhué, G; Merabti, T & Darmoni, SJ. The EHTOP: indexing Health resources in a multi-terminology/ontology and cross-lingual world. EAHIL 2012, 2012. Accepted as Oral presentation.
Abstract: The European Health Terminology/ Ontology Portal (EHTOP) is a repository dedicated to European health professionals and students. Currently, it provides access to terminologies and ontologies available in French or in English, but also in German, Italian, Dutch, Spanish, Danish and other 17 languages. EHTOP can be used by humans and by computers via Web services. The main objective of EHTOP is to provide an access to terminologies and ontologies, allowing dynamic browsing and navigation. Methods: To integrate terminologies and ontologies into EHTOP, three steps are necessary: (1) designing a meta-model into which each terminology and ontology can be integrated, (2) developing a process to include terminologies into EHTOP, (3) building and integrating existing and new inter & intra-terminology semantic harmonization into EHTOP. Results: EHTOP is available freely for the ICD-10 and the FMA (URL: http://www.ehtop.eu/). The access to other terminologies/ontologies (MeSH, SNOMED CT, WHO-ATC, ...) is restricted and available only for the scientific community. A total of 32 terminologies are included into EHTOP, with 980,000 concepts, 2,300,000 synonyms, 222,800 definitions and 4,000,000 relations. Since January 2010, the bilingual version of EHTOP is daily used by CISMeF librarians to index health resources in the CISMeF catalogue in a multi-terminology mode. Currently, 600 unique machines are using this bilingual version, whereas 300 users are already registered. Conclusion: EHTOP is a rich tool, useful for a wide range of applications and users for educational purpose, resources indexing, information retrieval or performing audits in terminology management.
BibTeX: @inproceedings{Grosjean2012, author = {Grosjean, J and Kerdelhué, G and Merabti, T and Darmoni, SJ}, title = {The EHTOP: indexing Health resources in a multi-terminology/ontology and cross-lingual world}, booktitle = {EAHIL 2012}, year = {2012}, note = {Accepted as Oral presentation} }
2011 1 Publication internationale Faro, S & Lecroq, T. The Exact Online String Matching Problem: a Review of the Most Recent Results. ACM Computing Surveys , 2011. Accepted.
BibTeX: @article{Faro2011a, author = {Faro, S and Lecroq, T}, title = {The Exact Online String Matching Problem: a Review of the Most Recent Results}, journal = {ACM Computing Surveys}, year = {2011}, note = {Accepted}, url = {http://www-igm.univ-mlv.fr/~lecroq/articles/acmsurv2013.pdf} }
1 Publication internationale Gehanno, JF; Ladner, J; Rollin, L; Dahamna, B & Darmoni, SJ. How are the different specialties represented in the major journals in general medicine?. BMC Medical Informatics and Decision Making , Volume 11, Number 1, Pages 3, 2011.
Abstract: BACKGROUND:General practitioners and medical specialists mainly rely on one "general medical" journal to keep their medical knowledge up to date. Nevertheless, it is not known if these journals display the same overview of the medical knowledge in different specialties. The aims of this study were to measure the relative weight of the different specialties in the major journals of general medicine, to evaluate the trends in these weights over a ten-year period and to compare the journals.METHODS:The 14,091 articles published in The Lancet, the NEJM, the JAMA and the BMJ in 1997, 2002 and 2007 were analyzed. The relative weight of the medical specialities was determined by categorization of all the articles, using a categorization algorithm which inferred the medical specialties relevant to each article MEDLINE file from the MeSH terms used by the indexers of the US National Library of Medicine to describe each article.RESULTS:The 14,091 articles included in our study were indexed by 22,155 major MeSH terms, which were categorized into 81 different medical specialties. Cardiology and Neurology were in the first 3 specialties in the 4 journals. Five and 15 specialties were systematically ranked in the first 10 and first 20 in the four journals respectively. Among the first 30 specialties, 23 were common to the four journals. For each speciality, the trends over a 10-year period were different from one journal to another, with no consistency and no obvious explanatory factor.CONCLUSIONS:Overall, the representation of many specialties in the four journals in general and internal medicine included in this study may differ, probably due to different editorial policies. Reading only one of these journals may provide a reliable but only partial overview.
BibTeX: @article{Gehanno2011, author = {Gehanno, JF and Ladner, J and Rollin, L and Dahamna, B and Darmoni, SJ}, title = {How are the different specialties represented in the major journals in general medicine?}, journal = {BMC Medical Informatics and Decision Making}, year = {2011}, volume = {11}, number = {1}, pages = {3}, doi = {10.1186/1472-6947-11-3} }
1 Publication internationale Gerbier, Solweig; Yarovaya, Olga; Gicquel, Quentin; Millet, Anne-Laure; Smaldore, Veronique; Pagliaroli, Veronique; Darmoni, Stefan & Metzger, Marie-Helene. Evaluation of natural language processing from emergency department computerized medical records for intra-hospital syndromic surveillance. BMC Medical Informatics and Decision Making , Volume 11, Number 1, Pages 50, 2011.
Abstract: BACKGROUND:The identification of patients who pose an epidemic hazard when they are admitted to a health facility plays a role in preventing the risk of hospital acquired infection. An automated clinical decision support system to detect suspected cases, based on the principle of syndromic surveillance, is being developed at the University of Lyon's Hopital de la Croix-Rousse. This tool will analyse structured data and narrative reports from computerized emergency department (ED) medical records. The first step consists of developing an application (UrgIndex) which automatically extracts and encodes information found in narrative reports. The purpose of the present article is to describe and evaluate this natural language processing system.METHODS:Narrative reports have to be pre-processed before utilizing the French-language medical multi-terminology indexer (ECMT) for standardized encoding. UrgIndex identifies and excludes syntagmas containing a negation and replaces non-standard terms (abbreviations, acronyms, spelling errors...). Then, the phrases are sent to the ECMT through an Internet connection. The indexer's reply, based on Extensible Markup Language, returns codes and literals corresponding to the concepts found in phrases. UrgIndex filters codes corresponding to suspected infections. Recall is defined as the number of relevant processed medical concepts divided by the number of concepts evaluated (coded manually by the medical epidemiologist). Precision is defined as the number of relevant processed concepts divided by the number of concepts proposed by UrgIndex. Recall and precision were assessed for respiratory and cutaneous syndromes.RESULTS:Evaluation of 1,674 processed medical concepts contained in 100 ED medical records (50 for respiratory syndromes and 50 for cutaneous syndromes) showed an overall recall of 85.8% (95% CI: 84.1-87.3). Recall varied from 84.5% for respiratory syndromes to 87.0% for cutaneous syndromes. The most frequent cause of lack of processing was non-recognition of the term by UrgIndex (9.7. Overall precision was 79.1% (95% CI: 77.3-80.8). It varied from 81.4% for respiratory syndromes to 77.0% for cutaneous syndromes.CONCLUSIONS:This study demonstrates the feasibility of and interest in developing an automated method for extracting and encoding medical concepts from ED narrative reports, the first step required for the detection of potentially infectious patients at epidemic risk.
BibTeX: @article{gerbier_evaluation_2011, author = {Gerbier, Solweig and Yarovaya, Olga and Gicquel, Quentin and Millet, {Anne-Laure} and Smaldore, Veronique and Pagliaroli, Veronique and Darmoni, Stefan and Metzger, {Marie-Helene}}, title = {Evaluation of natural language processing from emergency department computerized medical records for intra-hospital syndromic surveillance}, journal = {{BMC} Medical Informatics and Decision Making}, year = {2011}, volume = {11}, number = {1}, pages = {50}, url = {http://www.biomedcentral.com/1472-6947/11/50}, doi = {10.1186/1472-6947-11-50} }
1 Publication internationale Léonard, M.; Mouchard, L. & Salson, M.. On the number of elements to reorder when updating a suffix array. Journal of Discrete Algorithms , Volume In Press, Corrected Proof, 2011.
Abstract: textlessptextgreatertextlessbr/textgreaterRecently new algorithms appeared for updating the Burrows-Wheeler Transform or the suffix array, when the text they index is modified. These algorithms proceed by reordering entries and the number of such reordered entries may be as high as the length of the text. However, in practice, these algorithms are faster for updating the Burrows-Wheeler Transform or the suffix array than the fastest reconstruction algorithms.textlessbr/textgreaterIn this article we focus on the number of elements to be reordered for real-life texts. We show that this number is related to LCP values and that, on average, Lave entries are reordered, where Lave denotes the average LCP value, defined as the average length of the longest common prefix between two consecutive sorted suffixes. Since we know little about the LCP distribution for real-life texts, we conduct experiments on a corpus that consists of DNA sequences and natural language texts. The results show that apart from texts containing large repetitions, the average LCP value is close to the one expected on a random text.textless/ptextgreater
BibTeX: @article{Leonard2011, author = {Léonard, M. and Mouchard, L. and Salson, M.}, title = {On the number of elements to reorder when updating a suffix array}, journal = {Journal of Discrete Algorithms}, year = {2011}, volume = {In Press, Corrected Proof}, url = {http://www.sciencedirect.com/science/article/pii/S1570866711000037}, doi = {10.1016/j.jda.2011.01.002} }
1 Publication internationale Merabti, Tayeb; Soualmia, Lina; Grosjean, Julien; Palombi, Olivier; Muller, Jean-Michel & Darmoni, SJ. Translating the Foundational Model of Anatomy into French using knowledge-based and lexical methods. BMC Medical Informatics and Decision Making , Volume 11, Number 1, Pages 65, 2011.
Abstract: BACKGROUND:The Foundational Model of Anatomy (FMA) is the reference ontology regarding human anatomy. FMA vocabulary was integrated into the Health Multi Terminological Portal (HMTP) developed by CISMeF based on the CISMeF Information System which also includes 26 other terminologies and controlled vocabularies, mainly in French. However, FMA is primarily in English. In this context, the translation of FMA English terms into French could also be useful for searching and indexing French anatomy resources. Various studies have investigated automatic methods to assist the translation of medical terminologies or create multilingual medical vocabularies. The goal of this study was to facilitate the translation of FMA vocabulary into French.METHODS:We compare two types of approaches to translate the FMA terms into French. The rst one is UMLS-based on the conceptual information of the UMLS metathesaurus. The second method is lexically-based on several Natural Language Processing (NLP) tools.RESULTS:The UMLS-based approach produced a translation of 3,661 FMA terms into French whereas the lexical approach produced a translation of 3,129 FMA terms into French. A qualitative evaluation was made on 100 FMA terms translated by each method. For the UMLS-based approach, among the 100 translations, 52% were manually rated as "very good" and only 7% translations as "bad". For the lexical approach, among the 100 translations, 47% were rated as "very good" and 20% translations as "bad".CONCLUSIONS:Overall, a low rate of translations were demonstrated by the two methods. The two approaches permitted us to semi-automatically translate 3,776 FMA terms from English into French, this was to added to the existing 10,844 French FMA terms in the HMTP (4,436 FMA French terms and 6,408 FMA terms manually translated).
BibTeX: @article{Merabti2011b, author = {Merabti, Tayeb and Soualmia, Lina and Grosjean, Julien and Palombi, Olivier and Muller, Jean-Michel and Darmoni, SJ}, title = {Translating the Foundational Model of Anatomy into French using knowledge-based and lexical methods}, journal = {BMC Medical Informatics and Decision Making}, year = {2011}, volume = {11}, number = {1}, pages = {65}, url = {http://www.biomedcentral.com/1472-6947/11/65}, doi = {10.1186/1472-6947-11-65} }
1 Publication internationale Philippe, Nicolas; Salson, Mikael; Lecroq, Thierry; Leonard, Martine; Commes, Therese & Rivals, Eric. Querying large read collections in main memory: a versatile data structure. BMC Bioinformatics , Volume 12, Number 1, Pages 242, 2011.
Abstract: BACKGROUND:High Throughput Sequencing (HTS) is now heavily exploited for genome (re-)sequencing, metagenomics, epigenomics, and transcriptomics and requires different, but computer intensive bioinformatic analyses. When a reference genome is available, mapping reads on it is the first step of this analysis. Read mapping programs owe their efficiency to the use of involved genome indexing data structures, like the Burrows-Wheeler transform. Recent solutions index both the genome, and the k-mers of the reads using hash-tables to further increase efficiency and accuracy. In various contexts (e.g. assembly or transcriptome analysis), read processing requires to determine the sub-collection of reads that are related to a given sequence, which is done by searching for some k-mers in the reads. Currently, many developments have focused on genome indexing structures for read mapping, but the question of read indexing remains broadly unexplored. However, the increase in sequence throughput urges for new algorithmic solutions to query large read collections efficiently. RESULTS:Here, we present a solution, named Gk arrays, to index large collections of reads, an algorithm to build the structure, and procedures to query it. Once constructed, the index structure is kept in main memory and is repeatedly accessed to answer queries like "given a k-mer, get the reads containing this k-mer (once/at least once)". We compared our structure to other solutions that adapt uncompressed indexing structures designed for long texts and show that it processes queries fast, while requiring much less memory. Our structure can thus handle larger read collections. We provide examples where such queries are adapted to different types of read analysis (SNP detection, assembly, RNA-Seq). CONCLUSIONS:Gk arrays constitute a versatile data structure that enables fast and more accurate read analysis in various contexts. The Gk arrays provide a flexible brick to design innovative programs that mine efficiently genomics, epigenomics, metagenomics, or transcriptomics reads. The Gk arrays library is available under Cecill (GPL compliant) license from http://www.atgc-montpellier.fr/ngs/.
BibTeX: @article{philippe_querying_2011, author = {Philippe, Nicolas and Salson, Mikael and Lecroq, Thierry and Leonard, Martine and Commes, Therese and Rivals, Eric}, title = {Querying large read collections in main memory: a versatile data structure}, journal = {{BMC} Bioinformatics}, year = {2011}, volume = {12}, number = {1}, pages = {242}, url = {http://www.biomedcentral.com/1471-2105/12/242}, doi = {10.1186/1471-2105-12-242} }
1 Publication internationale Soualmia, LF; Dahamna, B & Darmoni SJ. Extracting and Evaluating Knowledge from e-Health Documents : a Contribution to Information Retrieval and Indexing in : Information Extraction from Internet. , Pages 89-108, CreateSpace, 2011.
BibTeX: @inbook{Soualmia2011, author = {Soualmia, LF and Dahamna, B and Darmoni SJ}, title = {Information Extraction from Internet}, publisher = {CreateSpace}, year = {2011}, pages = {89-108}, url = {http://www.iconceptpress.com/01/site/publication.downloadPaper.php?paperID=100619153747} }
1 Publication internationale Séralini, Gilles-Eric; Mesnage, Robin; Clair, Emilie; Gress, Steeve; de Vendômois, Joël & Cellier, Dominique. Genetically modified crops safety assessments: present limits and possible improvements. Environmental Sciences Europe , Volume 23, Number 1, Pages 10, 2011.
BibTeX: @article{seralini_genetically_2011, author = {Séralini, {Gilles-Eric} and Mesnage, Robin and Clair, Emilie and Gress, Steeve and de Vendômois, Joël and Cellier, Dominique}, title = {Genetically modified crops safety assessments: present limits and possible improvements}, journal = {Environmental Sciences Europe}, year = {2011}, volume = {23}, number = {1}, pages = {10}, url = {http://www.enveurope.com/content/23/1/10}, doi = {10.1186/2190-4715-23-10} }
2 Publication nationale Joubert, M & le consortium du projet InterSTIS. Interopérabilité sémantique de terminologies de santé francophones. IRBM , Volume 32, Number 2, Pages 80-82, 2011.
Abstract: Contexte La prolifération des documents liés à la santé des individus pose aujourd'hui le problème de leur indexation et de leur recherche dans de vastes bases de données.Objectif Si l'on veut indexer d'autres types de documents que des documents pédagogiques ou de la documentation scientifique, il faut être capable d'indexer des comptes rendus cliniques, des résultats d'examens, des courriers, etc.Matériel et méthode Des terminologies à visées différentes sont alors utilisées : la SNOMED pour le codage d'informations cliniques, la CIM-10 et la CCAM pour le codage épidémiologique et médico-économique, la CISP utilisée par les médecins généralistes, etc. Le but d'InterSTIS était de les unifier et de les rendre interopérables au sein d'un « serveur terminologique multi-sources ». InterSTIS exploite des sources de connaissance de UMLS issues de la National Library of Medicine des États-Unis pour rendre ces terminologies interopérables.Résultat Un serveur terminologique multi-sources opérationnel apte à délivrer des services à des utilisateurs et à des applications. InterSTIS a commencé en janvier 2008 et s'est fini en décembre 2010.
BibTeX: @article{Joubert2011, author = {Joubert, M and le consortium du projet InterSTIS}, title = {Interopérabilité sémantique de terminologies de santé francophones}, journal = {{IRBM}}, year = {2011}, volume = {32}, number = {2}, pages = {80-82}, url = {http://www.sciencedirect.com/science/article/B94S6-5295K6S-6/2/2a900945a16a740449bd22d6bb379b7a}, doi = {10.1016/j.irbm.2011.01.030} }
2 Publication nationale Merabti, Tayeb. Le CISMeF agrège ses terminologies pour une meilleure recherche dans ses fonds. Documentaliste - Sciences de l'information , Number 4, 2011.
Abstract: Le Cismef intègre désormais plusieurs terminologies au service de l'indexation et de l'interrogation de ses ressources. Un chantier mené à bien grâce à l'emploi de standards du web sémantique tels que RDF et Owl.
BibTeX: @article{Merabti2011c, author = {Merabti, Tayeb}, title = {Le CISMeF agrège ses terminologies pour une meilleure recherche dans ses fonds}, journal = {Documentaliste - Sciences de l'information}, year = {2011}, number = {4}, url = {http://www.adbs.fr/web-semantique-web-de-donnees-pole-2-le-cismef-agrege-ses-terminologies-pour-une-meilleure-recherche-dans-ses-fonds-112553.htm?RH=REVUE} }
3 Communication internationale Abdoune, H; Merabti, T; Darmoni SJ & Joubert, M. Assisting the translation of the CORE Subset of SNOMED CT into French. User Centred Networked Health Care - Proceedings of MIE 2011, Studies in Health Technology and Informatics, Volume 169, Pages 819-823, 2011.
Abstract: Background: the Core Subset of SNOMED CT is part of the UMLS-Core Project dedicated to study problem list vocabularies. SNOMED CT is not yet translated into French. Objective: to propose an automated method to assist the translation of the CORE Subset of SNOMED CT into French. Material: the 2009 AA versions of the CORE Subset of SNOMED CT and UMLS; use of four French-language terminologies integrated into the UMLS Metathesaurus: SNOMED International, ICD10, MedDRA, and MeSH. Method: an exact mapping completed by a close mapping between preferred terms of the CORE Subset of SNOMED CT and those of the four terminologies. Results: 89% of the preferred terms of the CORE Subset of SNOMED CT are mapped with at least one preferred term in one of the four terminologies. Discussion: if needed, synonymous terms could be added by the means of synonyms in the terminologies; the proposed method is independent from French and could be applied to other natural languages.
BibTeX: @inproceedings{Abdoune2011, author = {Abdoune, H and Merabti, T and Darmoni SJ and Joubert, M}, title = {Assisting the translation of the CORE Subset of SNOMED CT into French}, booktitle = {User Centred Networked Health Care - Proceedings of MIE 2011}, year = {2011}, series = {Studies in Health Technology and Informatics}, volume = {169}, pages = {819-823}, doi = {10.3233/978-1-60750-806-9-819} }
3 Communication internationale Ammenwerth, E; Hackl, WO; Massari, P & Darmoni, SJ. Validation of Completeness, Correctness, Relevance and Understandability of the PSIP CDSS for Medication Safety. Patient Safety Informatics - Adverse Drug Events, Human Factors and IT Tools for Patient Medication Safety, Studies in Health Technology and Informatics, Volume 166, Pages 254-259, 2011. PSIP.
BibTeX: @inproceedings{Ammenwerth2011, author = {Ammenwerth, E and Hackl, WO and Massari, P and Darmoni, SJ}, title = {Validation of Completeness, Correctness, Relevance and Understandability of the PSIP CDSS for Medication Safety}, booktitle = {Patient Safety Informatics - Adverse Drug Events, Human Factors and IT Tools for Patient Medication Safety}, year = {2011}, series = {Studies in Health Technology and Informatics}, volume = {166}, pages = {254-259}, note = {PSIP}, url = {http://www.booksonline.iospress.nl/Content/View.aspx?piid=19731}, doi = {10.3233/978-1-60750-740-6-254} }
3 Communication internationale Bouhamed, H; Lecroq, T; Rebai, A & Jaoua, M. Data-organization before learning Multi-Entity Bayesian Networks structure. Proceedings of The International Conference on Pattern Recognition and Computer Vision, Amsterdam, Pays-Bas, Volume 78, Pages 305-308, World Academy of Science, Engineering and Technology, 2011. accepted.
BibTeX: @inproceedings{Bouhamed2011a, author = {Bouhamed, H and Lecroq, T and Rebai, A and Jaoua, M}, title = {Data-organization before learning Multi-Entity Bayesian Networks structure}, booktitle = {Proceedings of The International Conference on Pattern Recognition and Computer Vision}, address = {Amsterdam, Pays-Bas}, publisher = {World Academy of Science, Engineering and Technology}, year = {2011}, volume = {78}, pages = {305-308}, note = {accepted} }
3 Communication internationale Coutant, S; Lefebvre, A; Léonard, M; Prieur-Gaston, E; Campion, D; Lecroq, T & Dauchel, H. EVA: Exome Variation Analyzer, a convivial tool for filtering strategies. Proccedings of NETTAB'11(Network Tools and Applications in Biology), Pavia, Italy, 2011.
BibTeX: @inproceedings{Coutant2011, author = {Coutant, S and Lefebvre, A and Léonard, M and Prieur-Gaston, E and Campion, D and Lecroq, T and Dauchel, H}, title = {EVA: Exome Variation Analyzer, a convivial tool for filtering strategies}, booktitle = {Proccedings of NETTAB'11(Network Tools and Applications in Biology)}, address = {Pavia, Italy}, year = {2011} }
3 Communication internationale El Falah, T; Lecroq, T & Elloumi, M. Experimental Evaluation of Fast Solution Algorithms for the Simple Motif Problem. Proceedings of the First International Conference on Computer Science, Engineering and Information Technology, Tirunelveli, Inde, Communications in Computer and Information Science, Volume 204, Pages 601-610, Springer-Verlag, 2011. accepted.
BibTeX: @inproceedings{El2011, author = {El Falah, T and Lecroq, T and Elloumi, M}, title = {Experimental Evaluation of Fast Solution Algorithms for the Simple Motif Problem}, booktitle = {Proceedings of the First International Conference on Computer Science, Engineering and Information Technology}, address = {Tirunelveli, Inde}, publisher = {Springer-Verlag}, year = {2011}, series = {Communications in Computer and Information Science}, volume = {204}, pages = {601-610}, note = {accepted} }
3 Communication internationale El Falah, Tarek; Lecroq, Thierry & Elloumi, Mourad. An Efficient Motif Search Algorithm Based on a Minimal Forbidden Patterns Approach. 5th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB 2011), Advances in Intelligent and Soft Computing, Volume 93, Pages 175-182, Springer Berlin / Heidelberg, 2011.
BibTeX: @incollection{ElFalah2011, author = {El Falah, Tarek and Lecroq, Thierry and Elloumi, Mourad}, title = {An Efficient Motif Search Algorithm Based on a Minimal Forbidden Patterns Approach}, booktitle = {5th International Conference on Practical Applications of Computational Biology \& Bioinformatics (PACBB 2011)}, publisher = {Springer Berlin / Heidelberg}, year = {2011}, series = {Advances in Intelligent and Soft Computing}, volume = {93}, pages = {175-182}, doi = {10.1007/978-3-642-19914-1_24} }
3 Communication internationale El Falah, T.; Lecroq, T. & Elloumi, M.. Motif finding algorithms in biological sequences. Algorithms in Computational Molecular Biology: Techniques, Approaches and Applications , Pages 387-398 , Wiley , 2011.
BibTeX: @incollection{ELFALAH:2011:HAL-00560398:1, author = {{E}l {F}alah, {T}. and {L}ecroq, {T}. and {E}lloumi, {M}.}, title = { {M}otif finding algorithms in biological sequences}, booktitle = {{A}lgorithms in {C}omputational {M}olecular {B}iology: {T}echniques, {A}pproaches and {A}pplications }, publisher = {{W}iley }, year = {2011}, pages = {387-398 }, url = {http://hal.archives-ouvertes.fr/hal-00560398/en/} }
3 Communication internationale Faro, S & Lecroq, T. 2001-2010: ten years of exact string matching algorithms. Proceedings of the Prague Stringology Conference, Prague, Tchèque, République, Pages 1-2, 2011.
BibTeX: @inproceedings{Faro2011, author = {Faro, S and Lecroq, T}, title = {{2001-2010: ten years of exact string matching algorithms}}, booktitle = {{Proceedings of the Prague Stringology Conference}}, address = {Prague, Tch{\`e}que, R{\'e}publique}, year = {2011}, pages = {1-2} }
3 Communication internationale Fici, Gabriele; Lecroq, Thierry; Lefebvre, Arnaud & Prieur-Gaston, Elise. Computing abelian periods in words. London Stringology Days/London Algorithmic Workshop 2011, Londres, Royaume-Uni, 2011.
BibTeX: @inproceedings{Fici2011, author = {Fici, Gabriele and Lecroq, Thierry and Lefebvre, Arnaud and Prieur-Gaston, Elise}, title = {{Computing abelian periods in words}}, booktitle = {{London Stringology Days/London Algorithmic Workshop 2011}}, address = {Londres, Royaume-Uni}, year = {2011}, url = {http://hal.archives-ouvertes.fr/hal-00569139/en/} }
3 Communication internationale Fici, G.; Lecroq, T.; Lefebvre, A. & Prieur-Gaston, E.. Computing Abelian periods in words. Proceedings of the Prague Stringology Conference 2011, Prague, Tcheque Republic, Pages 184-196, 2011. accepted.
BibTeX: @inproceedings{Fici2011a, author = {{F}ici, {G}. and {L}ecroq, {T}. and {L}efebvre, {A}. and {P}rieur-{G}aston, {E}.}, title = { {C}omputing {A}belian periods in words}, booktitle = {Proceedings of the Prague Stringology Conference 2011}, address = {Prague, Tcheque Republic}, year = {2011}, pages = {184-196}, note = {accepted} }
3 Communication internationale Fici, G.; Lecroq, T.; Lefebvre, A. & Prieur-Gaston, E.. Computing Abelian Periods in Words. SeqBi11 - Workshop Algorithmique, combinatoire du texte et applications en bio-informatique , Rennes France , 2011.
BibTeX: @inproceedings{FICI:2011:HAL-00560414:1, author = {{F}ici, {G}. and {L}ecroq, {T}. and {L}efebvre, {A}. and {P}rieur-{G}aston, {E}.}, title = { {C}omputing {A}belian {P}eriods in {W}ords}, booktitle = {{S}eq{B}i11 - {W}orkshop {A}lgorithmique, combinatoire du texte et applications en bio-informatique }, address = {{R}ennes {F}rance }, year = {2011}, url = {http://hal.archives-ouvertes.fr/hal-00560414/en/} }
3 Communication internationale Fici, G.; Lecroq, T.; Lefebvre, A. & Prieur-Gaston, E.. Computing abelian periods in words. London Stringology Days/London Algorithmic Workshop 2011 , Londres Royaume-Uni , 2011.
BibTeX: @inproceedings{FICI:2011:HAL-00569139:1, author = {{F}ici, {G}. and {L}ecroq, {T}. and {L}efebvre, {A}. and {P}rieur-{G}aston, {E}.}, title = { {C}omputing abelian periods in words}, booktitle = {{L}ondon {S}tringology {D}ays/{L}ondon {A}lgorithmic {W}orkshop 2011 }, address = {{L}ondres {R}oyaume-{U}ni }, year = {2011}, url = {http://hal.archives-ouvertes.fr/hal-00569139/en/} }
3 Communication internationale Golbreich, C; Grosjean, J & Darmoni SJ. The FMA in OWL 2. AIME, Pages 204-214, Springer-Verlag, 2011.
BibTeX: @inproceedings{Golbreich2011, author = {Golbreich, C and Grosjean, J and Darmoni SJ}, title = {The FMA in OWL 2}, booktitle = {AIME}, publisher = {Springer-Verlag}, year = {2011}, pages = {204-214}, url = {http://www.springer.com/computer/ai/book/978-3-642-22217-7} }
3 Communication internationale Griffon, N; Soualmia LF; Névéol, A; Massari P; Thirion B; Dahamna, B & Darmoni, SJ. Evaluation of Multi-Terminology Super-Concepts for Information Retrieval. User Centred Networked Health Care - Proceedings of MIE 2011, Studies in Health Technology and Informatics, Volume 169, Pages 492-496, 2011. Accepted.
Abstract: Background: Following a recent change in the indexing policy for French quality controlled health gateway CISMeF, multiple terminologies are now being used for indexing in addition to MeSH®. Objective: To evaluate precision and recall of super-concepts for information retrieval in a multi-terminology paradigm compared to MeSH-only. Methods: We evaluate the relevance of resources retrieved by multi-terminology super-concepts and MeSH-only super-concepts queries. Results: Recall was 8-14% higher for multi-terminology super-concepts compared to MeSH only super-concepts. Precision decreased from 0.66 for MeSH only super-concepts to 0.61 for multi-terminology super-concepts. Retrieval performance was found to vary significantly depending on the super-concepts (p<10-4) and indexing methods (manual vs automatic; p<0.004). Conclusion: A multi-terminology paradigm contributes to increase recall but lowers precision. Automated tools for indexing are not accurate enough to allow a very precise information retrieval.
BibTeX: @inproceedings{Griffon2011, author = {Griffon, N and Soualmia LF and Névéol, A and Massari P and Thirion B and Dahamna, B and Darmoni, SJ}, title = {Evaluation of Multi-Terminology Super-Concepts for Information Retrieval}, booktitle = {User Centred Networked Health Care - Proceedings of MIE 2011}, year = {2011}, series = {Studies in Health Technology and Informatics}, volume = {169}, pages = {492-496}, note = {Accepted}, doi = {10.3233/978-1-60750-806-9-492} }
3 Communication internationale Grosjean, J; Merabti, T; Dahamna, B; Kergourlay, I; Thirion B; Soualmia LF & Darmoni, SJ. Health Multi-Terminology Portal: a semantics added-value for patient safety. Patient Safety Informatics - Adverse Drug Events, Human Factors and IT Tools for Patient Medication Safety, Studies in Health Technology and Informatics, Volume 166, Pages 129-138, 2011. PSIP.
BibTeX: @inproceedings{Grosjean2011a, author = {Grosjean, J and Merabti, T and Dahamna, B and Kergourlay, I and Thirion B and Soualmia LF and Darmoni, SJ}, title = {Health Multi-Terminology Portal: a semantics added-value for patient safety}, booktitle = {Patient Safety Informatics - Adverse Drug Events, Human Factors and IT Tools for Patient Medication Safety}, year = {2011}, series = {Studies in Health Technology and Informatics}, volume = {166}, pages = {129-138}, note = {PSIP}, url = {http://www.booksonline.iospress.nl/Content/View.aspx?piid=19716}, doi = {10.3233/978-1-60750-740-6-129} }
3 Communication internationale Grosjean, J; Merabti, T; Griffon, N; Dahamna, B & Darmoni SJ. Multiterminology cross-lingual model to create the European Health Terminology/Ontology Portal. Short papers of the 9th International Conference on Terminology and Artificial Intelligence, TIA, Paris, November, Pages 119-122, 2011.
BibTeX: @inproceedings{Grosjean2011b, author = {Grosjean, J and Merabti, T and Griffon, N and Dahamna, B and Darmoni SJ}, title = {Multiterminology cross-lingual model to create the European Health Terminology/Ontology Portal}, booktitle = {Short papers of the 9th International Conference on Terminology and Artificial Intelligence, TIA}, address = {Paris}, month = {November}, year = {2011}, pages = {119-122}, url = {http://tia2011.crim.fr/Proceedings/pdf/TIA20.pdf} }
3 Communication internationale Hagège, C; Marchal, P; Gicquel, Q; Darmoni, SJ; Pereira, S & Metzger, MH. Linguistic and Temporal Processing for Discovering Hospital Acquired Infection from Patient Records. Knowledge Representation for Health-Care, Lisbon, Portugal, August, Lecture Notes in Computer Science, Volume 6512, Pages 70-84, Springer Berlin / Heidelberg, 2011. The 2nd International Workshop on Knowledge Representation for Health Care (KR4HC-2010) - Workshop ECAI 2010.
Abstract: This paper describes the first steps of development of a rule-based system that automatically processes medical records in order to discover possible cases of hospital acquired infections (HAI). The system takes as input a set of patient records in electronic format and gives as output, for each document, information regarding HAI. In order to achieve this goal, a temporal processing together with a deep syntactic and semantic analysis of the patient records is performed. Medical knowledge used by the rules is derived from a set of documents that have been annotated by medical doctors. After a brief description of the context of this work, we present the general architecture of our document processing chain and explain how we perform our temporal and linguistic analysis. Finally, we report our preliminary results and we lay out the next steps of the project.
BibTeX: @inproceedings{Hagege2010, author = {Hagège, C and Marchal, P and Gicquel, Q and Darmoni, SJ and Pereira, S and Metzger, MH}, title = {Linguistic and Temporal Processing for Discovering Hospital Acquired Infection from Patient Records}, booktitle = {Knowledge Representation for Health-Care}, address = {Lisbon, Portugal}, month = {August}, publisher = {Springer Berlin / Heidelberg}, year = {2011}, series = {Lecture Notes in Computer Science}, volume = {6512}, pages = {70--84}, note = {The 2nd International Workshop on Knowledge Representation for Health Care (KR4HC-2010) - Workshop ECAI 2010}, doi = {10.1007/978-3-642-18050-7_6} }
3 Communication internationale Soualmia LF; Griffon, N; Grosjean, J & Darmoni SJ. Improving Information Retrieval by Meta-Modelling Medical Terminologies. 13th conference on Artificial Intelligence in MEdicine (AIME), Lectures Notes in ArtificiaI Intelligence, Pages pp. 215-219, Springer, Heidelberg, 2011. (in press).
BibTeX: @inproceedings{LF2011, author = {Soualmia LF and Griffon, N and Grosjean, J and Darmoni SJ}, title = {Improving Information Retrieval by Meta-Modelling Medical Terminologies}, booktitle = {13th conference on Artificial Intelligence in MEdicine (AIME)}, publisher = {Springer, Heidelberg}, year = {2011}, series = {Lectures Notes in ArtificiaI Intelligence}, pages = {pp. 215--219}, note = {(in press)}, doi = {10.1007/978-3-642-22218-4_26} }
3 Communication internationale Merabti, T; Abdoune, H; Letord, C; Sakji, S; Joubert, M & Darmoni SJ. Mapping the ATC classification to the UMLS Metathesaurus: some pragmatic applications. Patient Safety Informatics - Adverse Drug Events, Human Factors and IT Tools for Patient Medication Safety, Studies in Health Technology and Informatics, Volume 166, Pages 206-213, 2011. PSIP.
BibTeX: @inproceedings{Merabti2011a, author = {Merabti, T and Abdoune, H and Letord, C and Sakji, S and Joubert, M and Darmoni SJ}, title = {Mapping the ATC classification to the UMLS Metathesaurus: some pragmatic applications}, booktitle = {Patient Safety Informatics - Adverse Drug Events, Human Factors and IT Tools for Patient Medication Safety}, year = {2011}, series = {Studies in Health Technology and Informatics}, volume = {166}, pages = {206-213}, note = {PSIP}, url = {http://www.booksonline.iospress.nl/Content/View.aspx?piid=19725}, doi = {10.3233/978-1-60750-740-6-206} }
3 Communication internationale Moalla, Z; Soualmia, LF; Prieur-Gaston, E; Lecroq, T & Darmoni, SJ. Spell-checking queries by combining Levenshtein and Stoilos distances. Proccedings of NETTAB'11(Network Tools and Applications in Biology), Pavia, Italy, October, 2011. In press.
BibTeX: @inproceedings{Moalla2011a, author = {Moalla, Z and Soualmia, LF and Prieur-Gaston, E and Lecroq, T and Darmoni, SJ}, title = {Spell-checking queries by combining Levenshtein and Stoilos distances}, booktitle = {Proccedings of NETTAB'11(Network Tools and Applications in Biology)}, address = {Pavia, Italy}, month = {October}, year = {2011}, note = {In press}, url = {http://www-igm.univ-mlv.fr/~lecroq/articles/nettab2011-dis.pdf} }
3 Communication internationale Proux, D; Hagège, C; Gicquel, Q; Pereira, S; Darmoni, SJ; Segond, F & Metzger, MH. Architecture and Systems for Monitoring Hospital Acquired Infections inside Hospital Information Workflows. Proceedings of the Workshop on Biomedical Natural Language Processing, Hissar, Bulgaria, Pages 43-48, Association for Computational Linguistics, 2011.
Abstract: This paper describes the latest developments in the design of a tool to monitor Patient Discharge Summaries to detected pieces of evidences related to Hospital Acquired Infections. Anonymization, Named Entity detection, Temporal Expressions analysis and Causality detection methods have been developed and evaluated. They are embedded in a tool designed to work in a Hospital Information Workflow.
BibTeX: @inproceedings{Proux2011, author = {Proux, D and Hagège, C and Gicquel, Q and Pereira, S and Darmoni, SJ and Segond, F and Metzger, MH}, title = {Architecture and Systems for Monitoring Hospital Acquired Infections inside Hospital Information Workflows}, booktitle = {Proceedings of the Workshop on Biomedical Natural Language Processing}, address = {Hissar, Bulgaria}, publisher = {Association for Computational Linguistics}, year = {2011}, pages = {43-48}, url = {http://aclweb.org/anthology/W11-4207} }
4 Communication nationale Bouhaddou, O; Darmoni, SJ & Thonnet, M. Expérience avec le réseau national d'échange d'information médicale aux USA.. Systèmes d'information pour l'amélioration de la qualité en santé. Comptes rendus des quatorzièmes Journées francophones d'informatique médicale (JFIM)., Tunis, Septembre, Informatique et Santé, Pages 287-296, Springer, 2011.
BibTeX: @inproceedings{Bouhaddou2011, author = {Bouhaddou, O and Darmoni, SJ and Thonnet, M}, title = {Expérience avec le réseau national d'échange d'information médicale aux USA.}, booktitle = {Systèmes d'information pour l'amélioration de la qualité en santé. Comptes rendus des quatorzièmes Journées francophones d'informatique médicale (JFIM).}, address = {Tunis}, month = {Septembre}, publisher = {Springer}, year = {2011}, series = {Informatique et Santé}, pages = {287-296} }
4 Communication nationale Bouhamed, H; Lecroq, T; Rebai, A & Jaoua, M. Improving algorithms for knowledge discovery in genetics databases. 2nd International Workshop on Biological Knowledge Discovery and Data Mining (BIOKDD 2011), Toulouse, France, 2011. accepted.
BibTeX: @inproceedings{Bouhamed2011, author = {Bouhamed, H and Lecroq, T and Rebai, A and Jaoua, M}, title = {Improving algorithms for knowledge discovery in genetics databases}, booktitle = {2nd International Workshop on Biological Knowledge Discovery and Data Mining (BIOKDD 2011)}, address = {Toulouse, France}, year = {2011}, note = {accepted} }
4 Communication nationale Dirieh Dibad, AD; Soualmia, LF; Merabti, T; Grosjean, J; Sakji, S; Massari, P & Darmoni, SJ. Un modèle de données adapté à la recherche d'information dans le dossier patient informatisé : étude, conception et évaluation.. Systèmes d'information pour l'amélioration de la qualité en santé. Comptes rendus des quatorzièmes Journées francophones d'informatique médicale (JFIM)., Tunis, Septembre, Informatique et Santé, Pages 251-262, Springer, 2011.
BibTeX: @inproceedings{Dirieh2011, author = {Dirieh Dibad, AD and Soualmia, LF and Merabti, T and Grosjean, J and Sakji, S and Massari, P and Darmoni, SJ}, title = {Un modèle de données adapté à la recherche d'information dans le dossier patient informatisé : étude, conception et évaluation.}, booktitle = {Systèmes d'information pour l'amélioration de la qualité en santé. Comptes rendus des quatorzièmes Journées francophones d'informatique médicale (JFIM).}, address = {Tunis}, month = {Septembre}, publisher = {Springer}, year = {2011}, series = {Informatique et Santé}, pages = {251-262} }
4 Communication nationale Gicquel, Q; Proux, D; Marchal, P; Hagège, C; Berrouane, Y; Darmoni, SJ; Pereira, S; Segond, F & Metzger, MH. Evaluation d'un outil d'aide à l'anonymisation des documents médicaux basé sur le traitement automatique du langage naturel.. Systèmes d'information pour l'amélioration de la qualité en santé. Comptes rendus des quatorzièmes Journées francophones d'informatique médicale (JFIM)., Tunis, Septembre, Informatique et Santé, Pages 165-176, Springer, 2011.
BibTeX: @inproceedings{Gicquel2011, author = {Gicquel, Q and Proux, D and Marchal, P and Hagège, C and Berrouane, Y and Darmoni, SJ and Pereira, S and Segond, F and Metzger, MH}, title = {Evaluation d'un outil d'aide à l'anonymisation des documents médicaux basé sur le traitement automatique du langage naturel.}, booktitle = {Systèmes d'information pour l'amélioration de la qualité en santé. Comptes rendus des quatorzièmes Journées francophones d'informatique médicale (JFIM).}, address = {Tunis}, month = {Septembre}, publisher = {Springer}, year = {2011}, series = {Informatique et Santé}, pages = {165-176} }
4 Communication nationale Grosjean, J; Merabti, T & Darmoni SJ. Health Multi-Terminology Portal. RITS Recherche en Imagerie et Technologie pour la Santé, Rennes, 2011.
BibTeX: @inproceedings{Grosjean2011, author = {Grosjean, J and Merabti, T and Darmoni SJ}, title = {Health Multi-Terminology Portal}, booktitle = {RITS Recherche en Imagerie et Technologie pour la Santé}, address = {Rennes}, year = {2011} }
4 Communication nationale Hagège, C; Proux, D; Gicquel, Q; Darmoni, SJ; Pereira, S; Segond, F & Metzger, MH. Développement d'un système de détection des infections associées aux soins à partir de l'analyse de comptes-rendus d'hospitalisation. Traitement Automatique des Langues Naturelles (TALN), Montpellier, France, Juin-Juillet, 2011.
BibTeX: @inproceedings{Hagege2011a, author = {Hagège, C and Proux, D and Gicquel, Q and Darmoni, SJ and Pereira, S and Segond, F and Metzger, MH}, title = {Développement d'un système de détection des infections associées aux soins à partir de l'analyse de comptes-rendus d'hospitalisation}, booktitle = {Traitement Automatique des Langues Naturelles (TALN)}, address = {Montpellier, France}, month = {Juin-Juillet}, year = {2011}, url = {http://www.lirmm.fr/~lopez/RECITAL/PDF_court/Hagege_taln11_submission_136.pdf} }
4 Communication nationale Joubert, M; Vandenbussche, PY; Dahamna, B; Abdoune, H; Merabti, T; Pereira, S; Boyer, C; Staccini, P; Forget, JF; Delahousse, J; Darmoni, SJ & Fieschi, M. InterSTIS : interopérabilité sémantique de terminologies de santé francophones.. Systèmes d'information pour l'amélioration de la qualité en santé. Comptes rendus des quatorzièmes Journées francophones d'informatique médicale (JFIM)., Tunis, Septembre, Informatique et Santé, Pages 73-84, 2011.
BibTeX: @inproceedings{Joubert2011a, author = {Joubert, M and Vandenbussche, PY and Dahamna, B and Abdoune, H and Merabti, T and Pereira, S and Boyer, C and Staccini, P and Forget, JF and Delahousse, J and Darmoni, SJ and Fieschi, M}, title = {InterSTIS : interopérabilité sémantique de terminologies de santé francophones.}, booktitle = {Systèmes d'information pour l'amélioration de la qualité en santé. Comptes rendus des quatorzièmes Journées francophones d'informatique médicale (JFIM).}, address = {Tunis}, month = {Septembre}, year = {2011}, series = {Informatique et Santé}, pages = {73-84} }
4 Communication nationale Merabti, T; Grosjean, J; Abdoune, H; Joubert, M & Darmoni SJ. Automatic methods for mapping Biomedical terminologies in a Health Multi-Terminology Portal. EGC 2011 : atelier Extraction de Connaissances et Santé, 2011.
BibTeX: @inproceedings{Merabti2011, author = {Merabti, T and Grosjean, J and Abdoune, H and Joubert, M and Darmoni SJ}, title = {Automatic methods for mapping Biomedical terminologies in a Health Multi-Terminology Portal}, booktitle = {EGC 2011 : atelier Extraction de Connaissances et Santé}, year = {2011} }
4 Communication nationale Metzger, MH; Gicquel, Q; Kergourlay, I; Cluze, C; Grandbastien, B; Berrouane, Y; Tavolacci, MP; Segond, F; Pereira, S & Darmoni, SJ. Codage standardisé de données médicales textuelles à l'aide d'un serveur multi-terminologique de santé : exemple d'application en épidémiologie hospitalière.. Systèmes d'information pour l'amélioration de la qualité en santé. Comptes rendus des quatorzièmes Journées francophones d'informatique médicale (JFIM)., Tunis, Septembre, Informatique et Santé, Pages 109-120, 2011.
BibTeX: @inproceedings{Metzger2011, author = {Metzger, MH and Gicquel, Q and Kergourlay, I and Cluze, C and Grandbastien, B and Berrouane, Y and Tavolacci, MP and Segond, F and Pereira, S and Darmoni, SJ}, title = {Codage standardisé de données médicales textuelles à l'aide d'un serveur multi-terminologique de santé : exemple d'application en épidémiologie hospitalière.}, booktitle = {Systèmes d'information pour l'amélioration de la qualité en santé. Comptes rendus des quatorzièmes Journées francophones d'informatique médicale (JFIM).}, address = {Tunis}, month = {Septembre}, year = {2011}, series = {Informatique et Santé}, pages = {109-120} }
4 Communication nationale Moalla, Z; Soualmia, LF; Prieur-Gaston, E & Darmoni, SJ. Correction orthographique de requêtes : l'apport des distances de Levenshtein et Stoilos.. Systèmes d'information pour l'amélioration de la qualité en santé. Comptes rendus des quatorzièmes Journées francophones d'informatique médicale (JFIM)., Tunis, Septembre, Informatique et Santé, Pages 3-12, Springer, 2011.
BibTeX: @inproceedings{Moalla2011, author = {Moalla, Z and Soualmia, LF and Prieur-Gaston, E and Darmoni, SJ}, title = {Correction orthographique de requêtes : l'apport des distances de Levenshtein et Stoilos.}, booktitle = {Systèmes d'information pour l'amélioration de la qualité en santé. Comptes rendus des quatorzièmes Journées francophones d'informatique médicale (JFIM).}, address = {Tunis}, month = {Septembre}, publisher = {Springer}, year = {2011}, series = {Informatique et Santé}, pages = {3-12} }
4 Communication nationale Pereira, S; Letord, C; Darmoni, SJ & Serrot, E. Extraction des noms de médicaments dans les comptes rendus hospitaliers.. Systèmes d'information pour l'amélioration de la qualité en santé. Comptes rendus des quatorzièmes Journées francophones d'informatique médicale (JFIM)., Tunis, Septembre, Informatique et Santé, Pages 145-154, Springer, 2011.
BibTeX: @inproceedings{Pereira2011, author = {Pereira, S and Letord, C and Darmoni, SJ and Serrot, E}, title = {Extraction des noms de médicaments dans les comptes rendus hospitaliers.}, booktitle = {Systèmes d'information pour l'amélioration de la qualité en santé. Comptes rendus des quatorzièmes Journées francophones d'informatique médicale (JFIM).}, address = {Tunis}, month = {Septembre}, publisher = {Springer}, year = {2011}, series = {Informatique et Santé}, pages = {145-154} }
4 Communication nationale Philippe, N.; Salson, M.; Lecroq, T.; Léonard, M.; Commes, T. & Rivals, E.. A solution to index large set of short reads. seqBi11 - Workshop Algorithmique, combinatoire du texte et applications en bio-informatique , Rennes France , 2011.
BibTeX: @inproceedings{PHILIPPE:2011:HAL-00560731:1, author = {{P}hilippe, {N}. and {S}alson, {M}. and {L}ecroq, {T}. and {L}{\'e}onard, {M}. and {C}ommes, {T}. and {R}ivals, {E}.}, title = { {A} solution to index large set of short reads}, booktitle = {seq{B}i11 - {W}orkshop {A}lgorithmique, combinatoire du texte et applications en bio-informatique }, address = {{R}ennes {F}rance }, year = {2011}, url = {http://hal.archives-ouvertes.fr/hal-00560731/en/} }
4 Communication nationale Sakji, S; Elkin, P & Darmoni, SJ. Évaluation de l'indexation des comptes rendus médicaux à l'aide d'un outil états-unien adapté pour le français.. Systèmes d'information pour l'amélioration de la qualité en santé. Comptes rendus des quatorzièmes Journées francophones d'informatique médicale (JFIM)., Tunis, Septembre, Informatique et Santé, Pages 155-164, Springer, 2011.
BibTeX: @inproceedings{Sakji2011, author = {Sakji, S and Elkin, P and Darmoni, SJ}, title = {Évaluation de l'indexation des comptes rendus médicaux à l'aide d'un outil états-unien adapté pour le français.}, booktitle = {Systèmes d'information pour l'amélioration de la qualité en santé. Comptes rendus des quatorzièmes Journées francophones d'informatique médicale (JFIM).}, address = {Tunis}, month = {Septembre}, publisher = {Springer}, year = {2011}, series = {Informatique et Santé}, pages = {155-164} }
5 Résumé Berrouane, Y; Hagège, C; Gicquel, Q; Kergoulay, I; Pereira, S; Proux, D; Darmoni SJ; Segond, F & Metzger, MH. Preliminary evaluation of an automated detection tool for healthcare-associated infections, based on screening natural language medical reports. ECCMID European Congress of Clinical Microbiology and Infectious Diseases, 2011. Accepted.
BibTeX: @inproceedings{Berrouane2011, author = {Berrouane, Y and Hagège, C and Gicquel, Q and Kergoulay, I and Pereira, S and Proux, D and Darmoni SJ and Segond, F and Metzger, MH}, title = {Preliminary evaluation of an automated detection tool for healthcare-associated infections, based on screening natural language medical reports}, booktitle = {ECCMID European Congress of Clinical Microbiology and Infectious Diseases}, year = {2011}, note = {Accepted}, url = {http://www.eccmid-icc2011.org/} }
5 Résumé Bouhamed, H; Rebai, A; Lecroq, T & Jaoua, M. A novel knowledge-discovering approach from massive data. 7th International Conference on Data Mining (DMIN 2011), Las Vegas, Nevada, USA, 2011. Poster.
BibTeX: @inproceedings{Bouhamed2011b, author = {Bouhamed, H and Rebai, A and Lecroq, T and Jaoua, M}, title = {A novel knowledge-discovering approach from massive data}, booktitle = {7th International Conference on Data Mining (DMIN 2011)}, address = {Las Vegas, Nevada, USA}, year = {2011}, note = {Poster} }
5 Résumé Bousquet, C; Souvignet, J; Merabti, T; Sadou, E; Trombert, B & Rodrigues, JM. Method for mapping the French CCAM terminology to the UMLS metathesaurus. MIE, 2011. Accepted.
BibTeX: @inproceedings{Bousquet2011, author = {Bousquet, C and Souvignet, J and Merabti, T and Sadou, E and Trombert, B and Rodrigues, JM}, title = {Method for mapping the French CCAM terminology to the UMLS metathesaurus}, booktitle = {MIE}, year = {2011}, note = {Accepted} }
5 Résumé Dirieh Dibad, AD et al.. Information Retrieval in Electronic Health Record: a feasibility study. MIE, 2011. Accepted.
BibTeX: @inproceedings{Dirieh2011a, author = {Dirieh Dibad, AD et al.}, title = {Information Retrieval in Electronic Health Record: a feasibility study}, booktitle = {MIE}, year = {2011}, note = {Accepted}, url = {http://person.hst.aau.dk/ska/mie2011/CD/MIE_2011_Content/Posters/026_or_submission_136_3_am_sm_ok.pdf} }
5 Résumé Golbreich, C; Grosjean, J & Darmoni, SJ. The Foundational Model of Anatomy in the Health Multi-Terminology Portal. , 2011. Technical report.
BibTeX: @techreport{Golbreich2011a, author = {Golbreich, C and Grosjean, J and Darmoni, SJ}, title = {The Foundational Model of Anatomy in the Health Multi-Terminology Portal}, year = {2011}, note = {Technical report} }
5 Résumé Kerdelhue, G & Gehanno, JF. Tools and organization of a current awareness service. Eahil, 2011. One of 10 best posters..
BibTeX: @inproceedings{Kerdelhue2011, author = {Kerdelhue, G and Gehanno, JF}, title = {Tools and organization of a current awareness service}, booktitle = {Eahil}, year = {2011}, note = {One of 10 best posters.} }
2010 1 Publication internationale Golbreich, C; Grosjean, J & Darmoni, SJ. Pushing the FMA-OWL Enveloppe Further. , 2010. Technical report.
Abstract: Representing the Foundational Model of Anatomy (FMA) in OWL 2 W3C standard, is essential for its interoperability with other biomedical ontologies, its design, maintenance, and quality insurance. The paper describes the method and 'FMA-OWLizer' tool that moves the FMA to OWL 2. One main strength of the approach is to leverage OWL expressiveness to explicit some implicit semantics and naming conventions of the FMA, meanwhile improving its ontological model and fixing some FMA errors. Another originality is the flexibility and versatility of the conversion: many options allow for producing several FMA-OWL variants customized to users, e.g., choosing a frame or OWL source, generating an OWL DL or OWL 2, a full or reduced FMA target, configuring the classes definitions etc. Thus several new FMA-OWL ontologies are available. To the best of our knowledge, no complete representation of the entire FMA in OWL DL or OWL 2 existed so far.
BibTeX: @techreport{Golbreich2010, author = {Golbreich, C and Grosjean, J and Darmoni, SJ}, title = {Pushing the FMA-OWL Enveloppe Further}, year = {2010}, note = {Technical report}, url = {http://hal-lirmm.ccsd.cnrs.fr/lirmm-00495056/fr/} }
1 Publication internationale Golbreich, C; Grosjean J & Darmoni, SJ. FMA and HMTP Portal in OWL: Reconciling Ontology with Terminology in Life Sciences via Metamodeling. , June, 2010.
Abstract: The aim is to highlight how it is possible to reconcile ontologies and terminologies in Life Sciences via metamodeling. The paper focuses on the Foundational Model of Anatomy (FMA). The first part describes the FMA ontology formalization in OWL 2. The second part presents the Health Multi-Terminologies Portal (HMTP) of French terminologies implemented in OWL. It explains how its FMA terminology was obtained from the FMA ontology by reification. The FMA ontology and terminology illustrate how ontologies and terminologies can be made compatible via metamodeling. Advantages and possible means to bind the two views even more closely are discussed in conclusion. To the best of our knowledge, no complete representation of the FMA ontology and terminology in OWL 2 existed so far.
BibTeX: @techreport{Golbreich2010a, author = {Golbreich, C and Grosjean J and Darmoni, SJ}, title = {FMA and HMTP Portal in OWL: Reconciling Ontology with Terminology in Life Sciences via Metamodeling}, month = {June}, year = {2010}, url = {http://hal-lirmm.ccsd.cnrs.fr/lirmm-00534124/fr/} }
1 Publication internationale Groult, Richard; Prieur, Elise & Richomme, Gwénaël. Counting distinct palindromes in a word in linear time. Information Processing Letters , September, Volume 110, Number 20, Pages 908-912, 2010.
Abstract: textlessptextgreatertextlessbr/textgreaterWe design an algorithm to count the number of distinct palindromes in a word w in time O(w), by adapting an algorithm to detect all occurrences of maximal palindromes in a given word and using the longest previous factor array. As a direct consequence, this shows that the palindromic richness (or fullness) of a word can be checked in linear time.textless/ptextgreater
BibTeX: @article{groult_counting_2010, author = {Groult, Richard and Prieur, Elise and Richomme, Gwénaël}, title = {Counting distinct palindromes in a word in linear time}, month = {September}, journal = {Information Processing Letters}, year = {2010}, volume = {110}, number = {20}, pages = {908--912}, url = {http://www.sciencedirect.com/science/article/pii/S002001901000236X}, doi = {16/j.ipl.2010.07.018} }
1 Publication internationale Laetitia Rollin; Stefan Darmoni; Jean-François Caillard & Jean-François Gehanno. Searching for high-quality articles about intervention studies in occupational health - what is really missed when using only the Medline database?. Scand J Work Environ Health , Aug, 2010.
Abstract: OBJECTIVE: Most occupational health physicians access electronic databases to obtain reliable medical information. Although it is demonstrated that the use of Medline alone does not ensure comprehensiveness, many experts rely solely on this database. Our study aimed to discover to what extent the physician who limits his/her search to Medline misses studies of high quality. METHODS: We constructed a "gold standard" database of high-quality intervention studies gathering all the references included in the systematic reviews of the Cochrane Library and indexed under the topic "occupational health field". We then searched all these references, one by one, in Medline. RESULTS: Overall, 88.8% [95% confidence interval (95% CI) 86.1-91.5] of the high quality studies included in our gold standard database were indexed in Medline. References included in reviews on psychiatric or psychological topics were significantly less often indexed in Medline [81.7% (95% CI 75.9-88.5)] than references included in reviews on other topics [92.2% (95% CI 89.5-95.0)] (P=0.001). CONCLUSION: The recall ratio of Medline for high-quality intervention studies is close to 90 For occupational health practitioners who aim to find reliable answers to their daily practice questions, searching Medline only is more cost-effective than previously thought.
BibTeX: @article{Rollin2010, author = {Laetitia Rollin and Stefan Darmoni and Jean-François Caillard and Jean-François Gehanno}, title = {Searching for high-quality articles about intervention studies in occupational health - what is really missed when using only the Medline database?}, month = {Aug}, journal = {Scand J Work Environ Health}, year = {2010}, url = {http://www.sjweh.fi/show_abstract.php?abstract_id=3082} }
1 Publication internationale Salson, M; Lecroq, T; Léonard, M & Mouchard, L. Dynamic Extended Suffix Arrays. Journal of Discrete Algorithms , Volume 8, Number 2, Pages 241-257, 2010.
BibTeX: @article{Salson2009a, author = {Salson, M and Lecroq, T and Léonard, M and Mouchard, L}, title = {Dynamic Extended Suffix Arrays}, journal = {Journal of Discrete Algorithms}, year = {2010}, volume = {8}, number = {2}, pages = {241--257}, url = {http://www-igm.univ-mlv.fr/~lecroq/articles/jda2009.pdf}, doi = {10.1016/j.jda.2009.02.007} }
1 Publication internationale de Vendômois, Joël Spiroux; Cellier, Dominique; Vélot, Christian; Clair, Emilie; Mesnage, Robin & Séralini, Gilles-Eric. Debate on GMOs health risks after statistical findings in regulatory tests. International Journal of Biological Sciences , Volume 6, Number 6, Pages 590-598, 2010.
Abstract: We summarize the major points of international debate on health risk studies for the main commercialized edible GMOs. These GMOs are soy, maize and oilseed rape designed to contain new pesticide residues since they have been modified to be herbicide-tolerant (mostly to Roundup) or to produce mutated Bt toxins. The debated alimentary chronic risks may come from unpredictable insertional mutagenesis effects, metabolic effects, or from the new pesticide residues. The most detailed regulatory tests on the GMOs are three-month long feeding trials of laboratory rats, which are biochemically assessed. The tests are not compulsory, and are not independently conducted. The test data and the corresponding results are kept in secret by the companies. Our previous analyses of regulatory raw data at these levels, taking the representative examples of three GM maize NK 603, MON 810, and MON 863 led us to conclude that hepatorenal toxicities were possible, and that longer testing was necessary. Our study was criticized by the company developing the GMOs in question and the regulatory bodies, mainly on the divergent biological interpretations of statistically significant biochemical and physiological effects. We present the scientific reasons for the crucially different biological interpretations and also highlight the shortcomings in the experimental protocols designed by the company. The debate implies an enormous responsibility towards public health and is essential due to nonexistent traceability or epidemiological studies in the GMO-producing countries.
BibTeX: @article{de_vendomois_debate_2010, author = {de Vendômois, Joël Spiroux and Cellier, Dominique and Vélot, Christian and Clair, Emilie and Mesnage, Robin and Séralini, {Gilles-Eric}}, title = {Debate on {GMOs} health risks after statistical findings in regulatory tests}, journal = {International Journal of Biological Sciences}, year = {2010}, volume = {6}, number = {6}, pages = {590--598}, url = {http://www.biolsci.org/v06p0590.htm} }
2 Publication nationale Darmoni, SJ; Merabti, T; Joubert, M; Lecroq, T & Rath, A. Mapping biomedical terminologies using natural language processing tools and UMLS: mapping the Orphanet thesaurus to the MeSH. Ingénierie et Recherche Biomédicale / BioMedical Engineering and Research , Volume 31, Number 4, Pages 221-225, 2010.
Abstract: Background: Orphanet aims to provide rare disease information to healthcare professionals, patients, and their relatives. Objective: The objective of this work is to evaluate two methodologies (UMLS and manual Orphanet-ICD-10 link-based mapping & String Based matching) used to map Orphanet thesaurus to the MeSH thesaurus. Results: On a corpus of 375 mappings, the string based matching provides significantly better results than the UMLS and manual Orphanet-ICD-10 link-based mapping. Conclusion: String based matching could be applied to any biomedical terminology in French not yet included into UMLS.
BibTeX: @article{Darmoni2010, author = {Darmoni, SJ and Merabti, T and Joubert, M and Lecroq, T and Rath, A}, title = {Mapping biomedical terminologies using natural language processing tools and UMLS: mapping the Orphanet thesaurus to the MeSH}, journal = {Ingénierie et Recherche Biomédicale / BioMedical Engineering and Research}, year = {2010}, volume = {31}, number = {4}, pages = {221-225}, doi = {10.1016/j.irbm.2010.04.003} }
2 Publication nationale Faro, S. & Lecroq, T.. The Exact String Matching Problem: a Comprehensive Experimental Evaluation. , 2010.
BibTeX: @techreport{FARO:2010:HAL-00560411:1, author = {{F}aro, {S}. and {L}ecroq, {T}.}, title = { {T}he {E}xact {S}tring {M}atching {P}roblem: a {C}omprehensive {E}xperimental {E}valuation}, year = {2010}, url = {http://hal.archives-ouvertes.fr/hal-00560411/en/} }
2 Publication nationale Gaston, Benoist; Groult, Richard; Lefebvre, Arnaud; Léonard, Martine & Prieur-Gaston, Elise. Multiplions et divisons avec des bâtons : Les réglettes de Genaille et Lucas.. Bulletin Vert de l'APMEP , May, Number 488, Pages p. 339-348, 2010. http://www.apmep.asso.fr/spip.php?page=article\&id\_article=3624 .
Abstract: Les réglettes de Genaille et Lucas ont été inventées par l'ingénieur Henri Genaille en 1885 sur une proposition du mathématicien Édouard Lucas. Il existe des réglettes pour les multiplications et pour les divisions entières. Ces réglettes furent beaucoup utilisées jusque dans les années 1920, période d'apparition des règles à calcul qui précédèrent les calculatrices. Les réglettes présentées dans ce document permettent d'effectuer rapidement de grandes multiplications ou divisions sans calculer de tête. Nous expliquons comment les manipuler et les construire.
BibTeX: @article{Gaston2010, author = {Gaston, Benoist and Groult, Richard and Lefebvre, Arnaud and L{\'e}onard, Martine and Prieur-Gaston, Elise}, title = {{Multiplions et divisons avec des b{\^a}tons : Les r{\'e}glettes de Genaille et Lucas.}}, month = {May}, journal = {Bulletin Vert de l'APMEP}, year = {2010}, number = {488}, pages = {p. 339-348}, note = {http://www.apmep.asso.fr/spip.php?page=article\&id\_article=3624 }, url = {http://hal.archives-ouvertes.fr/hal-00488540/en/} }
2 Publication nationale Kerdelhué, G. CISMeF : un catalogue et index des sites médicaux de langue française. La Santé de l'Homme , Novembre-Décembre, Number 410, Pages 36, 2010.
BibTeX: @article{Kedelhue2010, author = {Kerdelhué, G}, title = {CISMeF : un catalogue et index des sites médicaux de langue française}, month = {Novembre-Décembre}, journal = {La Santé de l'Homme}, year = {2010}, number = {410}, pages = {36}, url = {http://www.inpes.sante.fr/SLH/pdf/sante-homme-410.pdf} }
3 Communication internationale Déleger, L; Merabti, T & Darmoni SJ. A Twofold Strategy for Translating a Medical Terminology into French. AMIA, 2010. Distinguished paper award.
BibTeX: @inproceedings{Deleger2010, author = {Déleger, L and Merabti, T and Darmoni SJ}, title = {A Twofold Strategy for Translating a Medical Terminology into French}, booktitle = {AMIA}, year = {2010}, note = {Distinguished paper award} }
3 Communication internationale T. El Falah; T. Lecroq & M. Elloumi. SMS-Forbid: an efficient algorithm for Simple Motif Problem. #proct#ISCA 2nd International Conference on Bioinformatics and Computational Biology, Honolulu, Hawai, Pages 121-126, The International Society for Computers and their Applications, 2010.
BibTeX: @inproceedings{Falah2010, author = {T. El Falah and T. Lecroq and M. Elloumi}, title = {SMS-Forbid: an efficient algorithm for Simple Motif Problem}, booktitle = {#proct#ISCA 2nd International Conference on Bioinformatics and Computational Biology}, address = {Honolulu, Hawai}, publisher = {The International Society for Computers and their Applications}, year = {2010}, pages = {121--126}, url = {http://www-igm.univ-mlv.fr/~lecroq/articles/bicob2010.pdf} }
3 Communication internationale Lamy, JB; Duclos, C; Hamek, S; Beuscart, MC; Kerdelhué, G; Darmoni, SJ; Favre, M; Falcoff, H; Simon, C; Pereira, S; Serrot, E; Mitouard, T; Hardouin, E; Kergosien, Y & Venot, A. Towards iconic language for patient records, drug monographs, guidelines and medical search engines. Stud Health Technol Inform MEDINFO 2010 - Proceedings of the 13th World Congress on Medical Informatics, Cape Town, South Africa, Volume 160, Number pt 1, Pages 156-160, 2010.
BibTeX: @inproceedings{Lamy2010, author = {Lamy, JB and Duclos, C and Hamek, S and Beuscart, MC and Kerdelhué, G and Darmoni, SJ and Favre, M and Falcoff, H and Simon, C and Pereira, S and Serrot, E and Mitouard, T and Hardouin, E and Kergosien, Y and Venot, A}, title = {Towards iconic language for patient records, drug monographs, guidelines and medical search engines}, booktitle = {MEDINFO 2010 - Proceedings of the 13th World Congress on Medical Informatics}, address = {Cape Town, South Africa}, journal = {Stud Health Technol Inform}, year = {2010}, volume = {160}, number = {pt 1}, pages = {156--160} }
3 Communication internationale Tayeb Merabti; Philipe Massari; Michel Joubert; Eric Sadou; Thierry Lecroq; Hocine Abdoune; Jean-Marie Rodrigues & Stefan J Darmoni. An Automated Approach to map a French terminology to UMLS.. Stud Health Technol Inform MEDINFO 2010 - Proceedings of the 13th World Congress on Medical Informatics, Cape Town, South Africa, Volume 160, Number pt 1, Pages 1040-1044, 2010.
Abstract: Background: CCAM is a French terminology for coding clinical procedures. CCAM is a multi-hierarchical structured classification for procedures used in France for reimbursement in health care, which is external to UMLS. Objective: The objective of this work is to describe a French lexical approach allowing mapping CCAM procedures to the UMLS Metathesaurus to achieve interoperability to multiple international terminologies. This approach used a preliminary step intended to take only the significant characters used to code CCAM corresponding to anatomical and actions axes. Results: According to the 7,926 CCAM codes used in this study, 5,212 possible matches (exact matching, single to multiple matching, partial matching) are found using the French CCAM to UMLS based mapping, 65% of the corresponding anatomical terms in the CCAM code are mapped to at least one UMLS Concept and 37% of the corresponding action terms in the CCAM code are mapped to at least one UMLS Concept. For all the exact matches found (n=200), 91% were rated by a human expert as narrower than the mapped UMLS Concepts, while only 3% were irrelevant.
BibTeX: @inproceedings{Merabti2010, author = {Tayeb Merabti and Philipe Massari and Michel Joubert and Eric Sadou and Thierry Lecroq and Hocine Abdoune and Jean-Marie Rodrigues and Stefan J Darmoni}, title = {An Automated Approach to map a French terminology to UMLS.}, booktitle = {MEDINFO 2010 - Proceedings of the 13th World Congress on Medical Informatics}, address = {Cape Town, South Africa}, journal = {Stud Health Technol Inform}, year = {2010}, volume = {160}, number = {pt 1}, pages = {1040--1044}, url = {http://hal.archives-ouvertes.fr/hal-00563123/en/} }
3 Communication internationale Merlin, B; Chazard, E; Pereira, S; Serrot, E; Sakji, S; Beuscart, R & Darmoni, SJ. Can F-MTI semantic-mined drug codes be used for Adverse Drug Events detection when no CPOE is available?. Stud Health Technol Inform MEDINFO 2010 - Proceedings of the 13th World Congress on Medical Informatics, Cape Town, South Africa, Volume 160, Number pt 1, Pages 1025-1029, 2010.
BibTeX: @inproceedings{Merlin2010, author = {Merlin, B and Chazard, E and Pereira, S and Serrot, E and Sakji, S and Beuscart, R and Darmoni, SJ}, title = {Can F-MTI semantic-mined drug codes be used for Adverse Drug Events detection when no CPOE is available?}, booktitle = {MEDINFO 2010 - Proceedings of the 13th World Congress on Medical Informatics}, address = {Cape Town, South Africa}, journal = {Stud Health Technol Inform}, year = {2010}, volume = {160}, number = {pt 1}, pages = {1025-1029} }
3 Communication internationale Proux, D; Marchal, P; Segond, F; Kergourlay, I; Pereira, S; Gicquel, Q; Darmoni, SJ & Metzger, MH. Improving Hospital Document workflow with a Risk Patterns Detection tool to detect potential Hospital Acquired Infections. Biomedical Information Extraction, RANLP conference, 2010. Accepted. ALADIN..
BibTeX: @inproceedings{Proux2010, author = {Proux, D and Marchal, P and Segond, F and Kergourlay, I and Pereira, S and Gicquel, Q and Darmoni, SJ and Metzger, MH}, title = {Improving Hospital Document workflow with a Risk Patterns Detection tool to detect potential Hospital Acquired Infections}, booktitle = {Biomedical Information Extraction, RANLP conference}, year = {2010}, note = {Accepted. ALADIN.} }
3 Communication internationale Sakji, S; Gicquel, Q; Pereira, S; Kergoulay, I; Proux, D; Darmoni SJ & Metzger, MH. Evaluation of a French Medical Multi-Terminology Indexer for the Manual Annotation of Natural Language Medical Reports of Healthcare-Associated Infections. Stud Health Technol Inform MEDINFO 2010 - Proceedings of the 13th World Congress on Medical Informatics, Cape Town, South Africa, Volume 160, Number Pt 1, Pages 252-256, 2010.
BibTeX: @inproceedings{Sakji2010, author = {Sakji, S and Gicquel, Q and Pereira, S and Kergoulay, I and Proux, D and Darmoni SJ and Metzger, MH}, title = {Evaluation of a French Medical Multi-Terminology Indexer for the Manual Annotation of Natural Language Medical Reports of Healthcare-Associated Infections}, booktitle = {MEDINFO 2010 - Proceedings of the 13th World Congress on Medical Informatics}, address = {Cape Town, South Africa}, journal = {Stud Health Technol Inform}, year = {2010}, volume = {160}, number = {Pt 1}, pages = {252--256} }
3 Communication internationale Soula, G; Darmoni, SJ; Le Beux, P; Renard, JM; Dahamna, B & Fieschi, M. An open repositories network development for medical teaching resources.. Stud Health Technol Inform MEDINFO 2010 - Proceedings of the 13th World Congress on Medical Informatics, Cape Town, South Africa, Volume 160, Number Pt 1, Pages 610-614, 2010.
Abstract: The lack of interoperability between repositories of heterogeneous and geographically widespread data is an obstacle to the diffusion, sharing and reutilization of those data. We present the development of an open repositories network taking into account both the syntactic and semantic interoperability of the different repositories and based on international standards in this field. The network is used by the medical community in France for the diffusion and sharing of digital teaching resources. The syntactic interoperability of the repositories is managed using the OAI-PMH protocol for the exchange of metadata describing the resources. Semantic interoperability is based, on one hand, on the LOM standard for the description of resources and on MESH for the indexing of the latter and, on the other hand, on semantic interoperability management designed to optimize compliance with standards and the quality of the metadata.
BibTeX: @inproceedings{Soula2010, author = {Soula, G and Darmoni, SJ and Le Beux, P and Renard, JM and Dahamna, B and Fieschi, M}, title = {An open repositories network development for medical teaching resources.}, booktitle = {MEDINFO 2010 - Proceedings of the 13th World Congress on Medical Informatics}, address = {Cape Town, South Africa}, journal = {Stud Health Technol Inform}, year = {2010}, volume = {160}, number = {Pt 1}, pages = {610--614} }
4 Communication nationale Gicquel, Q; Kergoulay, I; Pereira, S; Grandbastien, B; Berrouane, Y; Tavolacci, MP; Segond, F; Darmoni SJ & Metzger, MH. L'apport d'un serveur multi-terminologique de santé pour un codage standardisé de données épidémiologiques - Exemple d'application en épidémiologie hospitalière. Revue d'Épidemiologie et de Santé Publique Actes ADELF-EMOIS, Volume 58, Number S1, Pages S25, 2010. ALADIN-DTH.
BibTeX: @article{Gicquel2010, author = {Gicquel, Q and Kergoulay, I and Pereira, S and Grandbastien, B and Berrouane, Y and Tavolacci, MP and Segond, F and Darmoni SJ and Metzger, MH}, title = {L'apport d'un serveur multi-terminologique de santé pour un codage standardisé de données épidémiologiques - Exemple d'application en épidémiologie hospitalière}, booktitle = {Actes ADELF-EMOIS}, journal = {Revue d'Épidemiologie et de Santé Publique}, year = {2010}, volume = {58}, number = {S1}, pages = {S25}, note = {ALADIN-DTH}, url = {http://www.em-consulte.com/article/248607}, doi = {10.1016/j.respe.2010.02.065} }
4 Communication nationale Lecroq, T.. Alignments in 2D and experimentscientcient matching on encoded binary strings. Optimization and Learning: Theory, Algorithms and Applications 2010 , Metz France , 2010.
BibTeX: @inproceedings{LECROQ:2010:HAL-00504103:1, author = {{L}ecroq, {T}.}, title = { {A}lignments in 2{D} and experimentscientcient matching on encoded binary strings}, booktitle = {{O}ptimization and {L}earning: {T}heory, {A}lgorithms and {A}pplications 2010 }, address = {{M}etz {F}rance }, year = {2010}, url = {http://hal.archives-ouvertes.fr/hal-00504103/en/} }
4 Communication nationale Lecroq, T.. Indexing Structures and Next Generation Sequencing (NGS). Journées Montoises d'Informatique Théorique/ Mons Theoretical Computer Science Days , Amiens France , 2010.
BibTeX: @inproceedings{LECROQ:2010:HAL-00563117:1, author = {{L}ecroq, {T}.}, title = { {I}ndexing {S}tructures and {N}ext {G}eneration {S}equencing ({NGS})}, booktitle = {{J}ourn{\'e}es {M}ontoises d'{I}nformatique {T}h{\'e}orique/ {M}ons {T}heoretical {C}omputer {S}cience {D}ays }, address = {{A}miens {F}rance }, year = {2010}, url = {http://hal.archives-ouvertes.fr/hal-00563117/en/} }
5 Résumé Ammenwerth, E; Hackl, W; Bjoern, B; Koutkias, V; Massari, P; Pechlaner, C; Riedmann, D; Saboor, S & Darmoni, SJ. Validation of a knowledge base for advanced CPOE systems based on test cases. MEDINFO 2010 - Proceedings of the 13th World Congress on Medical Informatics, Cape Town, South Africa, 2010.
BibTeX: @inproceedings{Ammenwerth2010, author = {Ammenwerth, E and Hackl, W and Bjoern, B and Koutkias, V and Massari, P and Pechlaner, C and Riedmann, D and Saboor, S and Darmoni, SJ}, title = {Validation of a knowledge base for advanced CPOE systems based on test cases}, booktitle = {MEDINFO 2010 - Proceedings of the 13th World Congress on Medical Informatics}, address = {Cape Town, South Africa}, year = {2010} }
5 Résumé Bousquet, C; Sadou, E; Merabti, T; Trombert, B; Kumar, A; Darmoni, SJ & Rodrigues, JM. Multiaxial description of the French CCAM terminology for clinical procedures and mapping on the UMLS metathesaurus. MEDINFO 2010 - Proceedings of the 13th World Congress on Medical Informatics, Cape Town, South Africa, 2010.
BibTeX: @inproceedings{Bousquet2010, author = {Bousquet, C and Sadou, E and Merabti, T and Trombert, B and Kumar, A and Darmoni, SJ and Rodrigues, JM}, title = {Multiaxial description of the French CCAM terminology for clinical procedures and mapping on the UMLS metathesaurus}, booktitle = {MEDINFO 2010 - Proceedings of the 13th World Congress on Medical Informatics}, address = {Cape Town, South Africa}, year = {2010} }
5 Résumé Goullé, J.P; Lacroix, C; Perreard, T; Spiroux, J; Cellier, D & Guerbet, M. Rejets de médicaments dans les eaux usées de l'agglomération de Rouen. 48ème CONGRES DE LA SOCIETE DE TOXICOLOGIE CLINIQUE, MARSEILLE, FRANCE, May, 2010.
BibTeX: @inproceedings{Goulle2010, author = {Goullé, J.P and Lacroix, C and Perreard, T and Spiroux, J and Cellier, D and Guerbet, M}, title = {Rejets de médicaments dans les eaux usées de l'agglomération de Rouen}, booktitle = {48ème CONGRES DE LA SOCIETE DE TOXICOLOGIE CLINIQUE}, address = {MARSEILLE, FRANCE}, month = {May}, year = {2010} }
5 Résumé Joubert, M; Merabti, T; Vandenbussche, PY; Abdoune, H; Dahamna, B; Fieschi, M & Darmoni, SJ. Modeling and Integrating Terminologies into a French Multi-terminology Server. MEDINFO 2010 - Proceedings of the 13th World Congress on Medical Informatics, Cape Town, South Africa, 2010.
BibTeX: @inproceedings{Joubert2010, author = {Joubert, M and Merabti, T and Vandenbussche, PY and Abdoune, H and Dahamna, B and Fieschi, M and Darmoni, SJ}, title = {Modeling and Integrating Terminologies into a French Multi-terminology Server}, booktitle = {MEDINFO 2010 - Proceedings of the 13th World Congress on Medical Informatics}, address = {Cape Town, South Africa}, year = {2010} }
5 Résumé Kerdelhué, G; Lamy, JB; Venot, A; Duclos, C & Darmoni, SJ. An iconic language for the "CISMeF Bonnes pratiques" website. EAHIL, 2010.
BibTeX: @inproceedings{Kerdelhue2010, author = {Kerdelhué, G and Lamy, JB and Venot, A and Duclos, C and Darmoni, SJ}, title = {An iconic language for the "CISMeF Bonnes pratiques" website}, booktitle = {EAHIL}, year = {2010} }
5 Résumé Merabti, T & Darmoni SJ. ATC to PubMed: a bibliographic tool for drugs. AMIA, 2010. Accepted.
BibTeX: @inproceedings{Merabti2010a, author = {Merabti, T and Darmoni SJ}, title = {ATC to PubMed: a bibliographic tool for drugs}, booktitle = {AMIA}, year = {2010}, note = {Accepted} }
2009 1 Publication internationale Crochemore, M & Lecroq, T. Suffix tree. Encyclopedia of Database Systems, Pages 2876-2880, Springer Verlag, 2009.
BibTeX: @incollection{Crochemore2009, author = {Crochemore, M and Lecroq, T}, title = {Suffix tree}, booktitle = {Encyclopedia of Database Systems}, publisher = {Springer Verlag}, year = {2009}, pages = {2876--2880}, doi = {10.1007/978-0-387-39940-9_1142} }
1 Publication internationale Crochemore, M & Lecroq, T. Trie. Encyclopedia of Database Systems, Pages 3179-3182, Springer Verlag, 2009.
BibTeX: @incollection{Crochemore2009a, author = {Crochemore, M and Lecroq, T}, title = {Trie}, booktitle = {Encyclopedia of Database Systems}, publisher = {Springer Verlag}, year = {2009}, pages = {3179--3182}, doi = {10.1007/978-0-387-39940-9_1143} }
1 Publication internationale Crochemore, M & Lecroq, T. Text data compression algorithms. Algorithms and Theory of Computation Handbook, Second Edition, Volume 1: General Concepts and Techniques, Boca Raton, FL, Pages 14.1-14.25, CRC Press Inc., 2009.
BibTeX: @incollection{Crochemore2009b, author = {Crochemore, M and Lecroq, T}, title = {Text data compression algorithms}, booktitle = {Algorithms and Theory of Computation Handbook, Second Edition, Volume 1: General Concepts and Techniques}, address = {Boca Raton, FL}, publisher = {CRC Press Inc.}, year = {2009}, pages = {14.1-14.25}, url = {http://208.254.79.11/product/isbn/9781584888222} }
1 Publication internationale Duval, JP; Lecroq, T & Lefebvre, A. Efficient validation and construction of border arrays and validation of string matching automata. RAIRO-Theoretical Informatics and Applications , Volume 43, Pages 281-297, 2009.
BibTeX: @article{Duval2009, author = {Duval, JP and Lecroq, T and Lefebvre, A}, title = {Efficient validation and construction of border arrays and validation of string matching automata}, journal = {RAIRO-Theoretical Informatics and Applications}, year = {2009}, volume = {43}, pages = {281-297}, doi = {10.1051/ita:2008030} }
1 Publication internationale Faro, S & Lecroq, T. Efficient Variants of the Backward-Oracle-Matching Algorithm. International Journal of Foundations of Computer Science , Volume 20, Pages 967-984, 2009.
BibTeX: @article{Faro2009a, author = {Faro, S and Lecroq, T}, title = {Efficient Variants of the Backward-Oracle-Matching Algorithm}, journal = {International Journal of Foundations of Computer Science}, year = {2009}, volume = {20}, pages = {967-984}, doi = {10.1142/S0129054109006991} }
1 Publication internationale Jean-François Gehanno; Laetitia Rollin; Tony Le Jean; Alexandre Louvel; Stefan Darmoni & William Shaw. Precision and Recall of Search Strategies for Identifying Studies on Return-To-Work in Medline.. J Occup Rehabil , Apr, Volume 19, Number 3, Pages 223-230, 2009.
Abstract: Introduction The purpose of this study was to report on the qualities of various search strategies and keywords to find return to work (RTW) studies in the Medline bibliographic database. Methods We searched Medline for articles on RTW published in 2003, using multiple search strings, and hand searched 16 major periodicals of rehabilitation or occupational medicine. Among the retrieved articles, those considered to be relevant, were pooled in a Gold Standard Database. From this database, we identified candidate text words or MeSH terms for search strategies using a word frequency analysis of the abstracts and a MEDLINE categorization algorithm. According to the frequency of identified terms, searches were run for each term independently and in combination. We computed Recall, Precision, and number needed to read (NNR = 1/Precision) of each keyword or combination of keywords. Results Among the 8,073 articles examined, 314 (3.9 were considered relevant and included in the Gold Standard Database. The search strings ("Rehabilitation, Vocational" [MeSH]), ("Return to work"[All]) and ("Back to work"[All]) had Recall/Precision ratio of 30.46/19.11, 59.55/87.38 and 3.18/90.91 respectively. Their combination with the Boolean operator OR yielded to a Recall/Precision ratio of 73.89/58.44% and a NNR of 1.7. For the end user requiring comprehensive literature search, the best string was ("Return to work" OR "Back to work" OR "Rehabilitation, vocational"[MeSH] OR "rehabilitation"[Subheading]), with a Recall of 88.22% and a NNR of 18. Conclusions No single MeSH term is available to help the physician to identify relevant studies on RTW in Medline. Locating these types of studies requires the use of various MeSH and non-MeSH terms in combination to obtain a satisfactory Recall. Nevertheless, enhancing the Recall of search strategies may lead to lower Precision, and higher NNR, although with a non linear trend. This factor must be taken into consideration by the end user in order to improve the cost-effectiveness ratio of the search in Medline.
BibTeX: @article{Gehanno2009, author = {Jean-François Gehanno and Laetitia Rollin and Tony Le Jean and Alexandre Louvel and Stefan Darmoni and William Shaw}, title = {Precision and Recall of Search Strategies for Identifying Studies on Return-To-Work in Medline.}, month = {Apr}, journal = {J Occup Rehabil}, year = {2009}, volume = {19}, number = {3}, pages = {223-230}, url = {http://dx.doi.org/10.1007/s10926-009-9177-0}, doi = {10.1007/s10926-009-9177-0} }
1 Publication internationale Humphrey, S; Névéol, A; Gobeil J; Ruch P; Darmoni SJ & Browne A. Comparing a Rule Based vs. Statistical System for Automatic Categorization of MEDLINE Documents According to Biomedical Specialty. Journal of the American Society for Information Science and Technology , july, Volume 60, Number 12, Pages 2530-2539, 2009.
BibTeX: @article{Humphrey2009, author = {Humphrey, S and Névéol, A and Gobeil J and Ruch P and Darmoni SJ and Browne A}, title = {Comparing a Rule Based vs. Statistical System for Automatic Categorization of MEDLINE Documents According to Biomedical Specialty}, month = {july}, journal = {Journal of the American Society for Information Science and Technology}, year = {2009}, volume = {60}, number = {12}, pages = {2530-2539}, doi = {10.1002/asi.21170} }
1 Publication internationale Raaf, H; Abdeddaïm, S & Messabih, B. Petri Nets for Modelling and Decomposition of Metabolic Network. International Review on Computers and Software , May, 2009.
Abstract: One model to present the metabolic networks is defined. This model based on Petri Nets (PNs), represents the metabolic network in qualitative manner and offers an appropriate expression to the structural analysis. The related previous works consist in using the PNs for simulating. A detailed qualitative analysis should be done before a quantitative (kinetic) analysis is made. This paper firstly extend construction strategy of Petri net model in considering data types in places( internal or external metabolite) and the types of transitions(reversible or irreversible reaction) to allow pathway analysis. Secondly, as pathway analysis of large metabolic networks meets with the problem of combinatorial explosion of pathways we propose to deconstruct metabolic networks into subnetworks based on the global network structure. So we propose to use a centrality measure based on shortest paths linking. To do this we give a new definition of reactions graph as a depending graph.
BibTeX: @article{Raaf2009, author = {Raaf, H and Abdeddaïm, S and Messabih, B}, title = {Petri Nets for Modelling and Decomposition of Metabolic Network}, month = {May}, journal = {International Review on Computers and Software}, year = {2009}, url = {http://www.praiseworthyprize.com/IRECOS_latest.html#Petri_Nets_for_Modelling_and__Decomposition_of_Metabolic_Network} }
1 Publication internationale Rollin, L; Darmoni, SJ; Caillard, JF & Gehanno, JF. Fate of abstracts presented at the ICOH International Meeting: are they followed by publication in peer-reviewed journals?. Scandinavian Journal of Work, Environment & Health , Volume 35, Number 6, Pages 461-465, 2009.
BibTeX: @article{Rollin2009a, author = {Rollin, L and Darmoni, SJ and Caillard, JF and Gehanno, JF}, title = {Fate of abstracts presented at the ICOH International Meeting: are they followed by publication in peer-reviewed journals?}, journal = {Scandinavian Journal of Work, Environment \& Health}, year = {2009}, volume = {35}, number = {6}, pages = {461-465}, url = {http://www.sjweh.fi/show_abstract.php?abstract_id=1362} }
1 Publication internationale Salson, M; Lecroq, T; Léonard, M & Mouchard, L. Dynamic Burrows-Wheeler Transform. Theoretical Computer Science , Volume 410, Number 43, Pages 4350-4359, 2009.
BibTeX: @article{Salson2009, author = {Salson, M and Lecroq, T and Léonard, M and Mouchard, L}, title = {Dynamic Burrows-Wheeler Transform}, journal = {Theoretical Computer Science}, year = {2009}, volume = {410}, number = {43}, pages = {4350-4359}, doi = {10.1016/j.tcs.2009.07.016} }
1 Publication internationale Sibert, L; Giorgi, R; Dahamna, B; Doucet, J; Charlin, B & Darmoni, SJ. Is a Web-based Concordance test feasible to assess therapeutic decision-making skills in a French context?. Medical Teacher , April, Volume 31, Number 4, Pages 162-8, 2009.
BibTeX: @article{Sibert2009, author = {Sibert, L and Giorgi, R and Dahamna, B and Doucet, J and Charlin, B and Darmoni, SJ}, title = {Is a Web-based Concordance test feasible to assess therapeutic decision-making skills in a French context?}, month = {April}, journal = {Medical Teacher}, year = {2009}, volume = {31}, number = {4}, pages = {162-8}, doi = {10.1080/01421590802572783} }
1 Publication internationale Séralini, Gilles-Eric; de Vendômois, Joël Spiroux; Cellier, Dominique; Sultan, Charles; Buiatti, Marcello; Gallagher, Lou; Antoniou, Michael & Dronamraju, Krishna R. How subchronic and chronic health effects can be neglected for GMOs, pesticides or chemicals. International Journal of Biological Sciences , Volume 5, Number 5, Pages 438-443, 2009.
Abstract: Chronic health effects are increasing in the world such as cancers, hormonal, reproductive, nervous, or immune diseases, even in young people. During regulatory toxicological subchronic tests to prevent these on mammalian health, prior commercialization of chemicals, including pesticides and drugs, or GMOs, some statistically significant findings may be revealed. This discussion is about the need to investigate the relevant criteria to consider those as biologically significant. The sex differences and the non linear dose or time related effects should be considered in contrast to the claims of a Monsanto-supported expert panel about a GMO, the MON 863 Bt maize, but also for pesticides or drugs, in particular to reveal hormone-dependent diseases and first signs of toxicities.
BibTeX: @article{seralini_how_2009, author = {Séralini, {Gilles-Eric} and de Vendômois, Joël Spiroux and Cellier, Dominique and Sultan, Charles and Buiatti, Marcello and Gallagher, Lou and Antoniou, Michael and Dronamraju, Krishna R}, title = {How subchronic and chronic health effects can be neglected for {GMOs}, pesticides or chemicals}, journal = {International Journal of Biological Sciences}, year = {2009}, volume = {5}, number = {5}, pages = {438--443}, url = {http://www.biolsci.org/v05p0438.htm} }
1 Publication internationale de Vendômois, Joël Spiroux; Roullier, François; Cellier, Dominique & Séralini, Gilles-Eric. A comparison of the effects of three GM corn varieties on mammalian health. International Journal of Biological Sciences , Volume 5, Number 7, Pages 706-726, 2009.
Abstract: We present for the first time a comparative analysis of blood and organ system data from trials with rats fed three main commercialized genetically modified (GM) maize (NK 603, MON 810, MON 863), which are present in food and feed in the world. NK 603 has been modified to be tolerant to the broad spectrum herbicide Roundup and thus contains residues of this formulation. MON 810 and MON 863 are engineered to synthesize two different Bt toxins used as insecticides. Approximately 60 different biochemical parameters were classified per organ and measured in serum and urine after 5 and 14 weeks of feeding. GM maize-fed rats were compared first to their respective isogenic or parental non-GM equivalent control groups. This was followed by comparison to six reference groups, which had consumed various other non-GM maize varieties. We applied nonparametric methods, including multiple pairwise comparisons with a False Discovery Rate approach. Principal Component Analysis allowed the investigation of scattering of different factors (sex, weeks of feeding, diet, dose and group). Our analysis clearly reveals for the 3 GMOs new side effects linked with GM maize consumption, which were sex- and often dose-dependent. Effects were mostly associated with the kidney and liver, the dietary detoxifying organs, although different between the 3 GMOs. Other effects were also noticed in the heart, adrenal glands, spleen and haematopoietic system. We conclude that these data highlight signs of hepatorenal toxicity, possibly due to the new pesticides specific to each GM corn. In addition, unintended direct or indirect metabolic consequences of the genetic modification cannot be excluded.
BibTeX: @article{de_vendomois_comparison_2009, author = {de Vendômois, Joël Spiroux and Roullier, François and Cellier, Dominique and Séralini, {Gilles-Eric}}, title = {A comparison of the effects of three {GM} corn varieties on mammalian health}, journal = {International Journal of Biological Sciences}, year = {2009}, volume = {5}, number = {7}, pages = {706--726}, url = {http://www.biolsci.org/v05p0706.htm} }
2 Publication nationale Darmoni, SJ; Ladner, J; Devos, P & Gehanno, JF. Robustesse du score SIGAPS, critère bibliométrique majeur pour l'enveloppe MERRI des CHU. Presse Med , Jul-Aug, Volume 38, Number 7-8, Pages 1056-61, 2009.
Abstract: SIGAPS is a bibliometric score that aims at making an inventory, evaluating and promoting scientific publications of hospitals that perform research. It has become a major stake in France since it is one of the most important components of the MERRI (Mission Training, Research, Reference and Innovation) founding of hospitals. This score is based on the points attributed to the authors of articles published in journals indexed in Medline, according to the rank of the authors and the Impact Factor of the journal. OBJECTIVES: to compare the reliability of the score when applying different way of computing it, and different weights for the rank or the Impact Factor. MATERIAL AND METHODS: we computed the scores of all the physicians of a University Hospital, using the rules that are actually applied at the national level. We then used 4 different scenarios, with different weight given to the rank of authors or the Impact Factor. We compared the scores obtained by each author according to the different scenarios with the Spearman's rank and Pearson's correlation coefficients. RESULTS: The score is not significantly affected when no points are given to the fourth authors and above, when the last author get more points or to change the points according to the Impact Factor of the journal. CONCLUSION: The different scenarios do not lead to significant changes for the physicians' scores, and therefore for the cumulated score of the hospital. Despite the well known limits of bibliometric indicators, the SIGAPS score appears reliable to compare the hospitals for founding decisions.
BibTeX: @article{Darmoni2009, author = {Darmoni, SJ and Ladner, J and Devos, P and Gehanno, JF}, title = {Robustesse du score SIGAPS, critère bibliométrique majeur pour l'enveloppe MERRI des CHU}, month = {Jul-Aug}, journal = {Presse Med}, year = {2009}, volume = {38}, number = {7-8}, pages = {1056-61}, url = {http://dx.doi.org/10.1016/j.lpm.2009.03.011}, doi = {10.1016/j.lpm.2009.03.011} }
2 Publication nationale Gehanno, JF; Kerdelhue, G; Darmoni, SJ; Fantoni, S; Frimat, P & Caillard, JF. Veille documentaire en santé au travail des personnels de santé. Archives des Maladies Professionnelles et de l'Environnement , Février, Volume 70, Pages 43-47, 2009.
BibTeX: @article{Gehanno2008a, author = {Gehanno, JF and Kerdelhue, G and Darmoni, SJ and Fantoni, S and Frimat, P and Caillard, JF}, title = {Veille documentaire en santé au travail des personnels de santé}, month = {Février}, journal = {Archives des Maladies Professionnelles et de l'Environnement}, year = {2009}, volume = {70}, pages = {43-47}, url = {http://www.sciencedirect.com/science/article/B8JFG-4V4M33G-1/2/0f2dccbfd9fa5b927ae379c705b567ba}, doi = {10.1016/j.admp.2008.10.020} }
2 Publication nationale Hervé Nabarette; François Romaneix; Célia Boyer; Stéphan Jacques Darmoni; Pierre-Louis Rémy & Etienne Caniard. Certification des sites dédiés à la santé en France.. Presse Med , Aug, 2009.
Abstract: The 2004 statute that created the French National Authority for Health (HAS, Haute Autorité de Santé) required it to establish a procedure for the certification of health-related web sites. The HAS established a procedure based on the HONcode certification scheme set up by the Health On the Net Foundation, with which HAS has a partnership agreement. The HONcode includes eight principles that govern the quality of online heath information and its presentation (quality of the production process). The collaboration between HAS and HON has already led to improvements in a large number of web sites in France and to their certification. The main advantages of certification for site publishers are better site quality and enhanced credibility rather than a larger audience. Quality certification has little impact on the choice of site by Internet users as they tend to use search engines to find health-related information. Future development of the procedure should work to increase the value of certification both by improving the quality of sites and in signaling quality to Internet users.
BibTeX: @article{Nabarette2009, author = {Hervé Nabarette and François Romaneix and Célia Boyer and Stéphan Jacques Darmoni and Pierre-Louis Rémy and Etienne Caniard}, title = {Certification des sites dédiés à la santé en France.}, month = {Aug}, journal = {Presse Med}, year = {2009}, url = {http://www.hon.ch/Conf/Docs/PresseMedicale_10/Article10.pdf}, doi = {10.1016/j.lpm.2009.06.008} }
2 Publication nationale Pauchet, A; El Abed, M; Merabti, T; Prieur, E; Lecroq, T & Darmoni, SJ. Identification de répétitions dans les navigations au sein d'un catalogue de santé. RIA (Revue d'Intelligence Artificielle) , Volume 23, Number 1, Pages 113-132, 2009.
BibTeX: @article{Pauchet, author = {Pauchet, A and El Abed, M and Merabti, T and Prieur, E and Lecroq, T and Darmoni, SJ}, title = {Identification de répétitions dans les navigations au sein d'un catalogue de santé}, journal = {RIA (Revue d'Intelligence Artificielle)}, year = {2009}, volume = {23}, number = {1}, pages = {113-132}, url = {http://ria.revuesonline.com/article.jsp?articleId=12858}, doi = {10.3166/ria.23.113-132} }
2 Publication nationale Sakji, S; Thirion, B; Dahamna, B & Darmoni, SJ. Recherche des sources d'information institutionnelle de santé françaises Le site Internet CISMeF. Presse Médicale , Octobre, Volume 38, Number 10, Pages 1443-1450, 2009.
BibTeX: @article{Sakji2009a, author = {Sakji, S and Thirion, B and Dahamna, B and Darmoni, SJ}, title = {Recherche des sources d'information institutionnelle de santé françaises Le site Internet CISMeF}, month = {Octobre}, journal = {Presse Médicale}, year = {2009}, volume = {38}, number = {10}, pages = {1443-1450}, doi = {10.1016/j.lpm.2009.05.014} }
2 Publication nationale Salson, M. Structures d'indexation compressées et dynamiques pour le texte. School: Université de Rouen, France, 2009.
BibTeX: @phdthesis{Salson2009b, author = {Salson, M}, title = {Structures d'indexation compressées et dynamiques pour le texte}, school = {Université de Rouen, France}, year = {2009} }
3 Communication internationale Beuscart, R; McNair, P; Darmoni, SJ; Koutkia, V; Maglaveras, N; Beuscart-Zephir, MC & Nohr, C. Patient safety: detection and prevention of adverse drug events.. Stud Health Technol Inform MIE2009, Volume 150, Pages 968-971, IOS Press, 2009.
Abstract: Adverse Drug Events (ADE) represent a key problem in Public Health. The detection and prevention of ADE is a real challenge for hospitals and healthcare professionals. Healthcare Information and Communication Technologies can contribute to reduce the incidence of preventable ADE. During this workshop, we will discuss the various aspects of detection of ADE through methods like data and semantic mining in medical databases; the possibility of preventing ADE by using clinical decision support systems; the importance of Human Factors Engineering and the contextualization of knowledge. Examples and demonstrations will come from the European Project PSIP, devoted to the detection and prevention of ADE in Hospitals.
BibTeX: @inproceedings{Beuscart2009, author = {Beuscart, R and McNair, P and Darmoni, SJ and Koutkia, V and Maglaveras, N and Beuscart-Zephir, MC and Nohr, C}, title = {Patient safety: detection and prevention of adverse drug events.}, booktitle = {MIE2009}, journal = {Stud Health Technol Inform}, publisher = {IOS Press}, year = {2009}, volume = {150}, pages = {968--971}, doi = {10.3233/978-1-60750-044-5-968} }
3 Communication internationale Darmoni, SJ; Joubert, M; Dahamna, B; Delahousse, J & Fieschi, M. SMTS: a French Health Multi-terminology Server. AMIA symp., Pages 808, IOS Press, 2009. InterSTIS.
BibTeX: @inproceedings{Darmoni2009b, author = {Darmoni, SJ and Joubert, M and Dahamna, B and Delahousse, J and Fieschi, M}, title = {SMTS: a French Health Multi-terminology Server}, booktitle = {AMIA symp.}, publisher = {IOS Press}, year = {2009}, pages = {808}, note = {InterSTIS} }
3 Communication internationale Darmoni, SJ; Sakji, S; Pereira, S; Merabti T; Prieur E; Joubert M & Thirion B. Multiple terminologies in an health portal: automatic indexing and information retrieval. Artificial Intelligence in Medicine, Verona, Italy, July, Lecture Notes in Computer Science, Pages 255-259, Springer, 2009. PSIP. InterSTIS.
Abstract: Background: In the specific context of developing quality-controlled health gateways, several standards must be respected (e.g. Dublin Core for metadata element set; thesaurus MeSH as the controlled vocabulary to index Internet resources; HON code to accredit quality of health Web sites). These standards were applied to create the CISMeF Web site (French acronym for Catalog & Index of Health Internet resources in French). Objective: In this work, the strategic shift of the CISMeF team is intended to index and retrieve French resources not anymore with a single terminology (MeSH thesaurus) but with the main health terminologies available in French (ICD 10, SNOMED International, CCAM, ATC). Methods & Results: Since 2005, we have developed the French Multi-Terminology Indexer (F-MTI), using a multi-terminology approach and mappings between health terminologies. This tool is used for automatic indexing and information retrieval. Conclusion: Since the last quarter of 2008, F-MTI is daily used in the CISMeF production environment and is connected to a French Health Multi-Terminology Server.
BibTeX: @inproceedings{Darmoni2009a, author = {Darmoni, SJ and Sakji, S and Pereira, S and Merabti T and Prieur E and Joubert M and Thirion B}, title = {Multiple terminologies in an health portal: automatic indexing and information retrieval}, booktitle = {Artificial Intelligence in Medicine}, address = {Verona, Italy}, month = {July}, publisher = {Springer}, year = {2009}, series = {Lecture Notes in Computer Science}, pages = {255-259}, note = {PSIP. InterSTIS}, doi = {10.1007/978-3-642-02976-9_37} }
3 Communication internationale Durieux, V & Kerdelhué, G. Access to health information on the Internet: can social bookmarking systems replace expert gateways?. Workshop EAHIL, Dublin, Ireland, June, 2009.
BibTeX: @inproceedings{Durieux2009, author = {Durieux, V and Kerdelhué, G}, title = {Access to health information on the Internet: can social bookmarking systems replace expert gateways?}, booktitle = {Workshop EAHIL}, address = {Dublin, Ireland}, month = {June}, year = {2009}, url = {http://www.eahil2009.ie/images/Eahil/Images/papers/fri8/durieux_paper.pdf} }
3 Communication internationale Gehanno, JF, Kerdelhué, G Darmoni, SJ. Relevance of Google Customized Search Engine vs. CISMeF Quality-Controlled Health Gateway. Stud Health Technol Inform MIE2009, Volume 150, Pages 312-6, 2009.
BibTeX: @inproceedings{Gehanno2009a, author = {Gehanno, JF, Kerdelhué, G Darmoni, SJ}, title = {Relevance of Google Customized Search Engine vs. CISMeF Quality-Controlled Health Gateway}, booktitle = {MIE2009}, journal = {Stud Health Technol Inform}, year = {2009}, volume = {150}, pages = {312-6}, doi = {10.3233/978-1-60750-044-5-312} }
3 Communication internationale Joubert, M; Abdoune, H; Merabti, T; Darmoni, SJ & Fieschi, M. Assisting the Translation of SNOMED CT into French using UMLS and four Representative French-language Terminologies. AMIA symp., Pages 291-295, IOS Press, 2009. InterSTIS.
BibTeX: @inproceedings{Joubert2009a, author = {Joubert, M and Abdoune, H and Merabti, T and Darmoni, SJ and Fieschi, M}, title = {Assisting the Translation of SNOMED CT into French using UMLS and four Representative French-language Terminologies}, booktitle = {AMIA symp.}, publisher = {IOS Press}, year = {2009}, pages = {291-295}, note = {InterSTIS} }
3 Communication internationale Merabti, Tand Letord, C; Abdoune, H; Lecroq, T; Joubert, M & Darmoni, SJ. Projection and inheritance of SNOMED CT Relations between MeSH Terms. Stud Health Technol Inform MIE2009, Volume 150, Pages 233-7, IOS Press, 2009. InterSTIS.
BibTeX: @inproceedings{Merabti2009a, author = {Merabti, Tand Letord, C and Abdoune, H and Lecroq, T and Joubert, M and Darmoni, SJ}, title = {Projection and inheritance of SNOMED CT Relations between MeSH Terms}, booktitle = {MIE2009}, journal = {Stud Health Technol Inform}, publisher = {IOS Press}, year = {2009}, volume = {150}, pages = {233-7}, note = {InterSTIS}, doi = {10.3233/978-1-60750-044-5-233} }
3 Communication internationale Pereira, S; Plaisantin, B; Korchi, M; Rozanes, N; Serrot, E; Joubert, M & Darmoni, SJ. Automatic construction of dictionnaries, application to product characteristics indexing. Stud Health Technol Inform MIE2009, Volume 150, Pages 512-6, IOS Press, 2009.
Abstract: Summary of Product Characteristics (SPC) indexing enables to extract all the information needed to analyze a prescription and find some inappropriate medications. We evaluate a French Multi-Terminology Indexer tool (F-MTI) for SPC automatic indexing. This tool uses a dictionary containing the textual forms that are likely to appear in natural language text for the drug clinical particular terms contained in the Vidal thesaurus (TUV). We developed a method to automatically generate this dictionary. The evaluation showed a precision of 52.9% and a recall of 46.2%. F-MTI will be integrated in a semi-automatic indexing tool.
BibTeX: @inproceedings{Pereira2009a, author = {Pereira, S and Plaisantin, B and Korchi, M and Rozanes, N and Serrot, E and Joubert, M and Darmoni, SJ}, title = {Automatic construction of dictionnaries, application to product characteristics indexing}, booktitle = {MIE2009}, journal = {Stud Health Technol Inform}, publisher = {IOS Press}, year = {2009}, volume = {150}, pages = {512-6}, doi = {10.3233/978-1-60750-044-5-512} }
3 Communication internationale Pereira, S; Sakji, S; Névéol, A; Kergoulay, I; Kerdelhué, G; Serrot, E; Joubert, M & Darmoni SJ. Abstract multi-terminology indexing for the assignment of MeSH descriptors. AMIA symp., Pages 521-525, IOS Press, 2009. PSIP.
BibTeX: @inproceedings{Pereira2009b, author = {Pereira, S and Sakji, S and Névéol, A and Kergoulay, I and Kerdelhué, G and Serrot, E and Joubert, M and Darmoni SJ}, title = {Abstract multi-terminology indexing for the assignment of MeSH descriptors}, booktitle = {AMIA symp.}, publisher = {IOS Press}, year = {2009}, pages = {521-525}, note = {PSIP} }
3 Communication internationale Proux, Denys; Marchal, Pierre; Segond, Frédérique; Kergourlay, Ivan; Darmoni, Stéfan; Pereira, Suzanne; Gicquel, Quentin & Metzger, Marie Hélène. Natural Language Processing to Detect Risk Patterns Related to Hospital Acquired Infections. Proceedings of the Workshop on Biomedical Information Extraction, Borovets, Bulgaria, September, Pages 35-41, Association for Computational Linguistics, 2009.
BibTeX: @inproceedings{proux-EtAl:2009:BiomedicalIE, author = {Proux, Denys and Marchal, Pierre and Segond, Fr\'{e}d\'{e}rique and Kergourlay, Ivan and Darmoni, St\'{e}fan and Pereira, Suzanne and Gicquel, Quentin and Metzger, Marie H\'{e}l\`{e}ne}, title = {Natural Language Processing to Detect Risk Patterns Related to Hospital Acquired Infections}, booktitle = {Proceedings of the Workshop on Biomedical Information Extraction}, address = {Borovets, Bulgaria}, month = {September}, publisher = {Association for Computational Linguistics}, year = {2009}, pages = {35--41}, url = {http://www.aclweb.org/anthology/W09-4506} }
3 Communication internationale Sakji, S; Dirieh Dibad, AD; Kergourlay, I; Joubert, M & Darmoni, SJ. Information Retrieval in Context Using Various Health Terminologies. RCIS, International Conference on Research Challenges in Information Science, Fez, Morocco, April, Pages 453-458, IEEE, 2009. PSIP.
BibTeX: @inproceedings{Sakji2009, author = {Sakji, S and Dirieh Dibad, AD and Kergourlay, I and Joubert, M and Darmoni, SJ}, title = {Information Retrieval in Context Using Various Health Terminologies}, booktitle = {RCIS, International Conference on Research Challenges in Information Science}, address = {Fez, Morocco}, month = {April}, publisher = {IEEE}, year = {2009}, pages = {453-458}, note = {PSIP}, doi = {10.1109/RCIS.2009.5089310} }
3 Communication internationale Sakji, S; Letord, C; Dahamna, B; Kergourlay, I; Pereira, S; Joubert, M & Darmoni, SJ. Automatic indexing in a drug information portal.. Stud Health Technol Inform , Volume 148, Pages 112-122, IOS Press, 2009. PSIP.
Abstract: Objective: The objective of this work is to create a bilingual (French/English) Drug Information Portal (DIP), in a multi-terminological context and to emphasize its exploitation by an ATC automatic indexing allowing having more pertinent information about substances, organs or systems on which drugs act and their therapeutic and chemical characteristics. Methods: The development of the DIP was based on the CISMeF portal, which catalogues and indexes the most important and quality-controlled sources of institutional health information in French. DIP has created specific functionalities and uses specific drugs terminologies such as the ATC classification which used to automatic index the DIP resources. Results: DIP is the result of collaboration between the CISMeF team and the VIDAL Company, specialized in drug information. DIP is conceived to facilitate the user information retrieval. The ATC automatic indexing provided relevant results in 76% of cases. Conclusion: Using multi-terminological context and in the framework of the drug field, indexing drugs with the appropriate codes or/and terms revealed to be very important to have the appropriate information storage and retrieval. The main challenge in the coming year is to increase the accuracy of the approach.
BibTeX: @inproceedings{Sakji2009c, author = {Sakji, S and Letord, C and Dahamna, B and Kergourlay, I and Pereira, S and Joubert, M and Darmoni, SJ}, title = {Automatic indexing in a drug information portal.}, journal = {Stud Health Technol Inform}, publisher = {IOS Press}, year = {2009}, volume = {148}, pages = {112--122}, note = {PSIP}, doi = {10.3233/978-1-60750-043-8-112} }
3 Communication internationale Sakji, S; Letord, C; Pereira , S; Dahamna, B; Joubert, M & Darmoni, SJ. Drug Information Portal in Europe: information retrieval with multiple health terminologies. Stud Health Technol Inform MIE2009, Volume 150, Pages 497-501, IOS Press, 2009. PSIP..
BibTeX: @inproceedings{Sakji2009b, author = {Sakji, S and Letord, C and Pereira , S and Dahamna, B and Joubert, M and Darmoni, SJ}, title = {Drug Information Portal in Europe: information retrieval with multiple health terminologies}, booktitle = {MIE2009}, journal = {Stud Health Technol Inform}, publisher = {IOS Press}, year = {2009}, volume = {150}, pages = {497-501}, note = {PSIP.}, doi = {10.3233/978-1-60750-044-5-497} }
3 Communication internationale Thirion, B; Robu, I & Darmoni, SJ. Optimization of the PubMed Automatic Term Mapping. Stud Health Technol Inform MIE2009, Volume 150, Pages 238-42, 2009.
BibTeX: @inproceedings{Thirion2009, author = {Thirion, B and Robu, I and Darmoni, SJ}, title = {Optimization of the PubMed Automatic Term Mapping}, booktitle = {MIE2009}, journal = {Stud Health Technol Inform}, year = {2009}, volume = {150}, pages = {238-42}, doi = {10.3233/978-1-60750-044-5-238} }
4 Communication nationale Chanoni, E; Lecroq, T & Pauchet, A. Extraction de motifs dans des dialogues annotés par programmation dynamique. Actes des Cinquièmes Journées Francophones Modèles Formels de l'Interaction, Lannion, France, Pages 101-112, 2009.
BibTeX: @inproceedings{Chanoni2009, author = {Chanoni, E and Lecroq, T and Pauchet, A}, title = {Extraction de motifs dans des dialogues annotés par programmation dynamique}, booktitle = {Actes des Cinquièmes Journées Francophones Modèles Formels de l'Interaction}, address = {Lannion, France}, year = {2009}, pages = {101--112} }
4 Communication nationale Dirieh Dibad, AD; Sakji, S; Prieur, E; Pereira, S; Joubert, M & Darmoni, SJ. Recherche d'information multi-terminologique en contexte : Etude préliminaire. Risques, technologies de l'information pour les pratiques médicales : comptes rendus des treizièmes journées francophones d'informatique médicale (JFIM), Nice, France, Avril, Informatique et santé, Volume 17, Pages 101-112, Springer, 2009. PSIP.
BibTeX: @inproceedings{Dirieh2009, author = {Dirieh Dibad, AD and Sakji, S and Prieur, E and Pereira, S and Joubert, M and Darmoni, SJ}, title = {Recherche d'information multi-terminologique en contexte : Etude préliminaire}, booktitle = {Risques, technologies de l'information pour les pratiques médicales : comptes rendus des treizièmes journées francophones d'informatique médicale (JFIM)}, address = {Nice, France}, month = {Avril}, publisher = {Springer}, year = {2009}, series = {Informatique et santé}, volume = {17}, pages = {101-112}, note = {PSIP}, url = {http://www.springer.com/medicine/book/978-2-287-99304-6} }
4 Communication nationale Faro, S & Lecroq, T. An efficient matching algorithm for encoded DNA sequences and binary strings. Proceedings of the 20th Annual Symposium on Combinatorial Pattern Matching CPM'09, Lille, France, Lecture Notes in Computer Science, Number 5577, Pages 106-155, Springer-Verlag, 2009.
Abstract: We present a new efficient algorithm for exact matching in encoded DNA sequences and on binary strings. Our algorithm combines a multi-pattern version of the Bndm algorithm and a simplified version of the Commentz-Walter algorithm. We performed also experimental comparisons with the most efficient algorithms presented in the literature. Experimental results show that the newly presented algorithm outperforms existing solutions in most cases.
BibTeX: @inproceedings{Faro2009b, author = {Faro, S and Lecroq, T}, title = {An efficient matching algorithm for encoded DNA sequences and binary strings}, booktitle = {Proceedings of the 20th Annual Symposium on Combinatorial Pattern Matching CPM'09}, address = {Lille, France}, publisher = {Springer-Verlag}, year = {2009}, series = {Lecture Notes in Computer Science}, number = {5577}, pages = {106-155}, doi = {10.1007/978-3-642-02441-2_10} }
4 Communication nationale Harris, EY; Lecroq, Y; Kucherov, G & Lonardi, S. CPM's 20th anniversary: a statistical retrospective. Proceedings of the 20th Annual Symposium on Combinatorial Pattern Matching CPM'09, Lille, France, Lecture Notes in Computer Science, Number 5577, Pages 1-11, Springer-Verlag, 2009.
Abstract: This year the Annual Symposiumon Combinatorial Pattern Matching (CPM) celebrates its 20th anniversary. Over the last two decades the Symposium has established itself as the most recognized international forum for research in combinatorial pattern matching and related applications. Contributions to the conference typically address issues of searching and matching strings and more complex patterns such as trees, regular expressions, graphs, point sets, and arrays. Advances in this field rely on the ability to expose combinatorial properties of the computational problem at hand and to exploit these properties in order to either achieve superior performance or identify conditions underwhich searches cannot be performed efficiently. The meeting also dealswith combinatorial problems in computational biology, data compression, data mining, coding, information retrieval, natural language processing and pattern recognition.
BibTeX: @inproceedings{Harris2009, author = {Harris, EY and Lecroq, Y and Kucherov, G and Lonardi, S}, title = {CPM's 20th anniversary: a statistical retrospective}, booktitle = {Proceedings of the 20th Annual Symposium on Combinatorial Pattern Matching CPM'09}, address = {Lille, France}, publisher = {Springer-Verlag}, year = {2009}, series = {Lecture Notes in Computer Science}, number = {5577}, pages = {1-11}, doi = {10.1007/978-3-642-02441-2_1} }
4 Communication nationale Joubert, M; Dahamna, B; Delahousse, J; Fieschi, M & Darmoni SJ. SMTS® : Un Serveur Multi-Terminologies de Santé. Risques, technologies de l'information pour les pratiques médicales : comptes rendus des treizièmes journées francophones d'informatique médicale (JFIM), Nice, France, Avril, Informatique et santé, Volume 17, Pages 47-56, 2009. InterSTIS.
BibTeX: @inproceedings{Joubert2009, author = {Joubert, M and Dahamna, B and Delahousse, J and Fieschi, M and Darmoni SJ}, title = {SMTS® : Un Serveur Multi-Terminologies de Santé}, booktitle = {Risques, technologies de l'information pour les pratiques médicales : comptes rendus des treizièmes journées francophones d'informatique médicale (JFIM)}, address = {Nice, France}, month = {Avril}, year = {2009}, series = {Informatique et santé}, volume = {17}, pages = {47-56}, note = {InterSTIS}, url = {http://www.springer.com/medicine/book/978-2-287-99304-6} }
4 Communication nationale Merabti, T; Abdoune, H; Lecroq, T; Joubert, M & Darmoni, SJ. Projection des relations SNOMED CT entre les termes de deux terminologies (CIM10 et SNOMED 3.5). Risques, technologies de l'information pour les pratiques médicales : comptes rendus des treizièmes journées francophones d'informatique médicale (JFIM), Nice, France, Avril, Informatique et santé, Volume 17, Pages 79-88, 2009. InterSTIS.
BibTeX: @inproceedings{Merabti2009, author = {Merabti, T and Abdoune, H and Lecroq, T and Joubert, M and Darmoni, SJ}, title = {Projection des relations SNOMED CT entre les termes de deux terminologies (CIM10 et SNOMED 3.5)}, booktitle = {Risques, technologies de l'information pour les pratiques médicales : comptes rendus des treizièmes journées francophones d'informatique médicale (JFIM)}, address = {Nice, France}, month = {Avril}, year = {2009}, series = {Informatique et santé}, volume = {17}, pages = {79-88}, note = {InterSTIS}, url = {http://www.springer.com/medicine/book/978-2-287-99304-6} }
4 Communication nationale Merabti, T & Darmoni SJ. Web sémantique au sein de CISMeF. i-expo, salon de l'information numérique, Juin, 2009.
BibTeX: @inproceedings{Merabti2009b, author = {Merabti, T and Darmoni SJ}, title = {Web sémantique au sein de CISMeF}, booktitle = {i-expo, salon de l'information numérique}, month = {Juin}, year = {2009} }
4 Communication nationale Pereira, S; Massari, P; Buemi, A; Dahamna, B; Serrot, E; Joubert, M & Darmoni SJ. F-MTI : outil d'indexation multi-terminologique : application à l'indexation automatique de la SNOMED. Risques, technologies de l'information pour les pratiques médicales : comptes rendus des treizièmes journées francophones d'informatique médicale (JFIM), Nice, France, Avril, Informatique et santé, Volume 17, Pages 57-67, 2009.
BibTeX: @inproceedings{Pereira2009, author = {Pereira, S and Massari, P and Buemi, A and Dahamna, B and Serrot, E and Joubert, M and Darmoni SJ}, title = {F-MTI : outil d'indexation multi-terminologique : application à l'indexation automatique de la SNOMED}, booktitle = {Risques, technologies de l'information pour les pratiques médicales : comptes rendus des treizièmes journées francophones d'informatique médicale (JFIM)}, address = {Nice, France}, month = {Avril}, year = {2009}, series = {Informatique et santé}, volume = {17}, pages = {57-67}, url = {http://www.springer.com/medicine/book/978-2-287-99304-6} }
5 Résumé Faro, S & Lecroq, T. Efficient Pattern Matching on Binary Strings. SOFSEM, 2009.
BibTeX: @inproceedings{Faro2009, author = {Faro, S and Lecroq, T}, title = {Efficient Pattern Matching on Binary Strings}, booktitle = {SOFSEM}, year = {2009} }
5 Résumé Letord, C; Sakji, S; Pereira, S; Dahamna, B; Kergoulay, I & Darmoni, SJ. A Drug Information Portal in Europe. AMIA symp., Pages 931, IOS Press, 2009. PSIP.
BibTeX: @inproceedings{Letord2009, author = {Letord, C and Sakji, S and Pereira, S and Dahamna, B and Kergoulay, I and Darmoni, SJ}, title = {A Drug Information Portal in Europe}, booktitle = {AMIA symp.}, publisher = {IOS Press}, year = {2009}, pages = {931}, note = {PSIP} }
5 Résumé Metzger, MH; Gicquel, Q; Proux, D; Pereira, S; Kergoulay, I; Serrot, E; Segond, F & Darmoni SJ. Development of an Automated Detection Tool for Health Care-Associated Infections Based on Screening Natural Language Medical Reports.. AMIA symp., Pages 967, IOS Press, 2009. ALADIN.
BibTeX: @inproceedings{Metzger2009, author = {Metzger, MH and Gicquel, Q and Proux, D and Pereira, S and Kergoulay, I and Serrot, E and Segond, F and Darmoni SJ}, title = {Development of an Automated Detection Tool for Health Care-Associated Infections Based on Screening Natural Language Medical Reports.}, booktitle = {AMIA symp.}, publisher = {IOS Press}, year = {2009}, pages = {967}, note = {ALADIN} }
5 Résumé Rollin, L; Darmoni, S; Caillard, JF & Gehanno, JF. Fate of abstracts presented at the ICOH International Meetings: are they followed by publication in peer-reviewed journals?. ICOH 2009 congress, 2009.
BibTeX: @inproceedings{Rollin2009, author = {Rollin, L and Darmoni, S and Caillard, JF and Gehanno, JF}, title = {Fate of abstracts presented at the ICOH International Meetings: are they followed by publication in peer-reviewed journals?}, booktitle = {ICOH 2009 congress}, year = {2009} }
5 Résumé Sibert, L; Dahamna, B; Doré, B & Darmoni SJ. Le test de concordance en urologie : du format papier à l'application en ligne. Pédagogie Médicale , Volume 10, Number Suppl. 1, 2009.
BibTeX: @article{Sibert2009a, author = {Sibert, L and Dahamna, B and Doré, B and Darmoni SJ}, title = {Le test de concordance en urologie : du format papier à l'application en ligne}, journal = {Pédagogie Médicale}, year = {2009}, volume = {10}, number = {Suppl. 1}, doi = {10.1051/pmed/20099993} }
2008 1 Publication internationale Crochemore, M & Lecroq, T. Sequential Multiple String Matching. Encyclopedia of Algorithms, Pages 826-829, Springer Verlag, 2008.
BibTeX: @incollection{Crochemore2008a, author = {Crochemore, M and Lecroq, T}, title = {Sequential Multiple String Matching}, booktitle = {Encyclopedia of Algorithms}, publisher = {Springer Verlag}, year = {2008}, pages = {826--829} }
1 Publication internationale Crochemore, M & Lecroq, T. Sequential Exact String Matching. Encyclopedia of Algorithms, Pages 824-826, Springer Verlag, 2008.
BibTeX: @incollection{Crochemore2008b, author = {Crochemore, M and Lecroq, T}, title = {Sequential Exact String Matching}, booktitle = {Encyclopedia of Algorithms}, publisher = {Springer Verlag}, year = {2008}, pages = {824--826} }
1 Publication internationale Crochemore, M & T. Lecroq, T. Alignments and Approximate String Matching. New Developments in Formal Languages and Applications, Studies in Computational Intelligence, Volume 113, Pages 59-93, Springer Verlag Berlin, 2008.
BibTeX: @incollection{Crochemore2008, author = {Crochemore, M and T. Lecroq, T}, title = {Alignments and Approximate String Matching}, booktitle = {New Developments in Formal Languages and Applications}, publisher = {Springer Verlag Berlin}, year = {2008}, series = {Studies in Computational Intelligence}, volume = {113}, pages = {59--93}, url = {http://springerlink.com/content/l872835380820687/?p=7706254dc0b246918bc8109ff852f7c5&pi=2}, doi = {10.1007/978-3-540-78291-9_3} }
1 Publication internationale Faro, S & Lecroq, T. Efficient Pattern Matching on Binary Strings. Rapport arXiv:0810.2390 , Oct, 2008.
Abstract: The binary string matching problem consists in finding all the occurrences of a pattern in a text where both strings are built on a binary alphabet. This is an interesting problem in computer science, since binary data are omnipresent in telecom and computer network applications. Moreover the problem finds applications also in the field of image processing and in pattern matching on compressed texts. Recently it has been shown that adaptations of classical exact string matching algorithms are not very efficient on binary data. In this paper we present two efficient algorithms for the problem adapted to completely avoid any reference to bits allowing to process pattern and text byte by byte. Experimental results show that the new algorithms outperform existing solutions in most cases.
BibTeX: @article{Faro2008a, author = {Faro, S and Lecroq, T}, title = {Efficient Pattern Matching on Binary Strings}, month = {Oct}, journal = {Rapport arXiv:0810.2390}, year = {2008}, url = {http://arxiv.org/abs/0810.2390} }
1 Publication internationale Névéol, A; Deserno, T; Darmoni, SJ; Güld, M & Aronson, AR. Natural language processing vs. content-based image analysis for medical document retrieval. Journal of the American Society for Information Science and Technology , sep, Volume 60, Number 1, Pages 123-134, 2008.
Abstract: One of the most significant recent advances in health information systems has been the shift from paper to electronic documents. While research on automatic text and image processing has taken separate paths, there is a growing need for joint efforts, particularly for electronic health records and biomedical literature databases. This work aims at comparing text-based versus image-based access to multimodal medical documents using state-of-the-art methods of processing text and image components. A collection of 180 medical documents containing an image accompanied by a short text describing it was divided into training and test sets. Content-based image analysis and natural language processing techniques are applied individually and combined for multimodal document analysis. The evaluation consists of an indexing task and a retrieval task based on the "gold standard" codes manually assigned to corpus documents. The performance of text-based and image-based access, as well as combined document features, is compared. Image analysis proves more adequate for both the indexing and retrieval of the images. In the indexing task, multimodal analysis outperforms both independent image and text analysis. This experiment shows that text describing images can be usefully analyzed in the framework of a hybrid text/image retrieval system.
BibTeX: @article{Neveol2009, author = {Névéol, A and Deserno, T and Darmoni, SJ and Güld, M and Aronson, AR}, title = {Natural language processing vs. content-based image analysis for medical document retrieval}, month = {sep}, journal = {Journal of the American Society for Information Science and Technology}, year = {2008}, volume = {60}, number = {1}, pages = {123--134}, doi = {10.1002/asi.20955} }
1 Publication internationale Prieur, E & Lecroq, T. On-line construction of compact suffix vectors and maximal repeats. Theoretical Computer Science , Volume 407, Number 1-3, Pages 290-301, 2008.
BibTeX: @article{Prieur, author = {Prieur, E and Lecroq, T}, title = {On-line construction of compact suffix vectors and maximal repeats}, journal = {Theoretical Computer Science}, year = {2008}, volume = {407}, number = {1-3}, pages = {290-301}, doi = {10.1016/j.tcs.2008.06.017} }
1 Publication internationale SMITH, DR; GEHANNO, JF & TAKAHASHI, K. Bibliometric Research in Occupational Health. Industrial Health , Volume 46, Number 6, Pages 519-522, 2008.
BibTeX: @article{SMITH2008, author = {SMITH, DR and GEHANNO, JF and TAKAHASHI, K}, title = {Bibliometric Research in Occupational Health}, journal = {Industrial Health}, year = {2008}, volume = {46}, number = {6}, pages = {519-522}, doi = {10.2486/indhealth.46.519} }
1 Publication internationale Touyar, N; Schbath, S; Cellier, D & Dauchel, H. Poisson approximation for the number of repeats in a stationary Markov chain. Journal of Applied Probabability , Volume 45, Number 2, Pages 440-455, 2008.
BibTeX: @article{Touyar2008, author = {Touyar, N and Schbath, S and Cellier, D and Dauchel, H}, title = {Poisson approximation for the number of repeats in a stationary Markov chain}, journal = {Journal of Applied Probabability}, year = {2008}, volume = {45}, number = {2}, pages = {440--455}, doi = {10.1239/jap/1214950359} }
2 Publication nationale Florea, F; Buzuloiu, V; Rogozan, A; Cornea, V; Bensrhair, A & Darmoni, SJ. Extraction and interpretation of image-related medical knowledge from on-line health-documents. UPB Scientific Bulletin, Series C: Electrical Engineering , Volume 70, Number 2, Pages 29-40, 2008.
Abstract: Over the last decade, Internet has become a significant source of information in numerous fields, including health. The French heath -catalogue CISMeF provides medical documents indexing and searching capabilities. The images represent a significant portion of the on-line medical knowledge and a valuable component of diagnosis and teaching. To enrich the Doc'CISMeF search engine with a "search -by-image-criteria" capability, we developed the MedIC module to allow the users to search for documents using image-related criteria. To extract accurate image descriptors, the MedIC architecture takes into consideration both the image itself and the corresponding image-related textregions. In this paper we present our approach for text-region extraction and interpretation, as well as the results obtained for image medical modality extraction.
BibTeX: @article{Florea2006c, author = {Florea, F and Buzuloiu, V and Rogozan, A and Cornea, V and Bensrhair, A and Darmoni, SJ}, title = {Extraction and interpretation of image-related medical knowledge from on-line health-documents}, journal = {UPB Scientific Bulletin, Series C: Electrical Engineering}, year = {2008}, volume = {70}, number = {2}, pages = {29-40} }
2 Publication nationale Gehanno, JF & Caillard, JF. Evidence-based medicine et évaluation des pratiques professionnelles. Archives des Maladies Professionnelles et de l'Environnement 2008 , Volume 69, Number 2, Pages 140-2, 2008.
BibTeX: @article{Gehanno2008c, author = {Gehanno, JF and Caillard, JF}, title = {Evidence-based medicine et évaluation des pratiques professionnelles}, journal = {Archives des Maladies Professionnelles et de l'Environnement 2008}, year = {2008}, volume = {69}, number = {2}, pages = {140-2}, doi = {10.1016/j.admp.2008.03.042} }
2 Publication nationale Gehanno, JF; Weber, J; Sobaszek, A; Cantineau, A; Sibert, L & Caillard, JF. Détermination des besoins éducatifs des futurs médecins du travail par une méthode de groupes de discussion dirigée. Archives des Maladies Professionnelles et de l'Environnement , Volume 69, Number 3, Pages 423-37, 2008.
BibTeX: @article{Gehanno2008b, author = {Gehanno, JF and Weber, J and Sobaszek, A and Cantineau, A and Sibert, L and Caillard, JF}, title = {Détermination des besoins éducatifs des futurs médecins du travail par une méthode de groupes de discussion dirigée}, journal = {Archives des Maladies Professionnelles et de l'Environnement}, year = {2008}, volume = {69}, number = {3}, pages = {423-37}, doi = {10.1016/j.admp.2008.05.005} }
2 Publication nationale Letord, C; Sakji, S; Pereira, S; Dahamna, B; Kergourlay, I & Darmoni, SJ. Recherche d'information multi-terminologique : application à un portail d'information sur le médicament en Europe. Ingénierie et Recherche Biomédicale / BioMedical Engineering and Research , Number 29, Pages 350-356, 2008. PSIP.
BibTeX: @article{Letord2008, author = {Letord, C and Sakji, S and Pereira, S and Dahamna, B and Kergourlay, I and Darmoni, SJ}, title = {Recherche d'information multi-terminologique : application à un portail d'information sur le médicament en Europe}, journal = {Ingénierie et Recherche Biomédicale / BioMedical Engineering and Research}, year = {2008}, number = {29}, pages = {350-356}, note = {PSIP}, doi = {10.1016/j.irbm.2008.10.001} }
2 Publication nationale Julien Mancini; Stefan Darmoni; Hervé Chaudet & Marius Fieschi. Le paradoxe de la « T2A bibliométrique » SIGAPS : un risque d'effet délétère sur la recherche française ?. Presse Med , Nov, 2008.
BibTeX: @article{Mancini2008, author = {Julien Mancini and Stefan Darmoni and Hervé Chaudet and Marius Fieschi}, title = {Le paradoxe de la « T2A bibliométrique » SIGAPS : un risque d'effet délétère sur la recherche française ?}, month = {Nov}, journal = {Presse Med}, year = {2008}, url = {http://dx.doi.org/10.1016/j.lpm.2008.10.005}, doi = {10.1016/j.lpm.2008.10.005} }
2 Publication nationale Pereira, S. Indexation multi-terminologique de concepts en santé. School: Université de Rouen, 2008.
BibTeX: @phdthesis{Pereira2008, author = {Pereira, S}, title = {Indexation multi-terminologique de concepts en santé}, school = {Université de Rouen}, year = {2008}, url = {http://suzanne.b.pereira.free.fr/Pereirathese.pdf} }
2 Publication nationale Rongère, Julie; Tavolacci, MP; Douyère, M; Thirion, B; Darmoni, SJ & Ladner, J. Utilisation et qualité des sites présentant l'offre de formations en santé publique.. Santé Publique , Volume 20, Number 5, Pages 465-474, 2008.
Abstract: The objective of this work was to study the use of the Internet and the quality of the websites for postgraduate public health courses in France, and to compare them with equivalent courses in the United States of America. Between June 2004 and January 2005, the authorized public health diplomas proposed in France and in the United States were inventoried and listed, and then all websites of these public health diplomas were systematically visited and reviewed using a standardized questionnaire. In France, 36 public health courses (7 post graduate diplomas [DEA], 13 Masters degrees [DESS] and 16 masters of public health [MPH]) were identified and selected from 53 websites. Information on student profiles, prerequisite skills, the courses' curricula and program descriptions and the potential career opportunities were more frequently available for the MPH compared to the DEA and DESS. In United States, 66 MPH and 127 Master of Science in Public Health (MSPH) programs were accredited. The target public and validation methods were more often indicated on the American sites, while the prerequisite skills were more frequently found on the French sites. The recent implementation of the LMD (Bachelor's-Masters-Doctoral degrees) education system in France has encouraged the utilisation of Internet as an information and communications tool for the presentation and marketing of these new diplomas.
BibTeX: @article{Rongere2008, author = {Rongère, Julie and Tavolacci, MP and Douyère, M and Thirion, B and Darmoni, SJ and Ladner, J}, title = {Utilisation et qualité des sites présentant l'offre de formations en santé publique.}, journal = {Santé Publique}, year = {2008}, volume = {20}, number = {5}, pages = {465--474}, doi = {10.3917/spub.085.0465} }
2 Publication nationale Sabourin, JC & Darmoni, SJ. Avec le score SIGAPS : c'est le moment de publier dans les Annales de pathologie !. Annales de Pathologie , April, Volume 28, Pages 77-78, 2008.
BibTeX: @article{Sabourin2008, author = {Sabourin, JC and Darmoni, SJ}, title = {Avec le score SIGAPS : c'est le moment de publier dans les Annales de pathologie !}, month = {April}, journal = {Annales de Pathologie}, year = {2008}, volume = {28}, pages = {77-78}, doi = {10.1016/j.annpat.2008.05.001} }
2 Publication nationale Thirion, B. L'Europe des bibliothèques de santé. BBF , Volume 53, Number 1, Pages 38-40, 2008.
BibTeX: @article{Thirion2008, author = {Thirion, B}, title = {L'Europe des bibliothèques de santé}, journal = {BBF}, year = {2008}, volume = {53}, number = {1}, pages = {38-40}, url = {http://bbf.enssib.fr/sdx/BBF/frontoffice/2008/01/document.xsp?id=bbf-2008-01-0038-007/2008/01/fam-dossier/dossier&statutMaitre=non&statutFils=non} }
3 Communication internationale Faro, S & Lecroq, T. Efficient Variants of the Backward-Oracle-Matching Algorithm. Proceedings of the Prague Stringology conference, #ctu#, Pages 146-160, 2008.
BibTeX: @inproceedings{Faro2008, author = {Faro, S and Lecroq, T}, title = {Efficient Variants of the Backward-Oracle-Matching Algorithm}, booktitle = {Proceedings of the Prague Stringology conference}, address = {#ctu#}, year = {2008}, pages = {146--160}, url = {http://www.stringology.org/event/2008/p14.html} }
3 Communication internationale Gehanno, JF. Teaching Evidence Based Medicine in Occupational Health.. EASOM Summer School, Amsterdam, Netherland, August, 2008.
BibTeX: @inproceedings{Gehanno2008d, author = {Gehanno, JF}, title = {Teaching Evidence Based Medicine in Occupational Health.}, booktitle = {EASOM Summer School}, address = {Amsterdam, Netherland}, month = {August}, year = {2008} }
3 Communication internationale Gehanno, JF; Kerdelhue, G; Letord, C; Fantoni, S & Frimat, P. A web site to follow-up literature in occupational health for healthcare workers. 8th International Conference on Education and Training in Occupational Health, Glasgow, UK, April, 2008.
BibTeX: @inproceedings{Gehanno2008, author = {Gehanno, JF and Kerdelhue, G and Letord, C and Fantoni, S and Frimat, P}, title = {A web site to follow-up literature in occupational health for healthcare workers}, booktitle = {8th International Conference on Education and Training in Occupational Health}, address = {Glasgow, UK}, month = {April}, year = {2008}, url = {http://www.gla.ac.uk/icoh2008/} }
3 Communication internationale Joubert, M; Darmoni, SJ; Avillach, P; Dahamna, B & Fieschi, M. Using Knowledge for Indexing Health Web Resources in a Quality-Controlled Gateway. eHealth Beyond the Horizon - Get IT There - Proceedings of MIE2008 - The XXIst International Congress of the European Federation for Medical Informatics, Göteborg, Sweden, May, Studies in Health Technology and Informatics, Volume 136, Pages 205 - 210, 2008.
Abstract: Objectives: The aim of this study is to provide to indexers MeSH terms to be considered as major ones in a list of terms automatically extracted from a document. Material and methods: We propose a method combining symbolic knowledge - the UMLS Metathesaurus and Semantic Network - and statistical knowledge drawn from co-occurrences of terms in the CISMeF database (a French-language quality-controlled health gateway) using data mining measures. The method was tested on CISMeF corpus of 293 resources. Results: There was a proportion of 0.37 0.26 major terms in the processed records. The method produced lists of terms with a proportion of terms initially pointed out as major of 0.54 0.31. Discussion: The method we propose reduces the number of terms, which seem not useful for content description of resources, such as ?check tags?, but retains the most descriptive ones. Discarding these terms is accounted for by: 1) the removal by using semantic knowledge of associations of concepts bearing no real medical significance, 2) the removal by using statistical knowledge of nonstatistically significant associations of terms. Conclusion: This method can assist effectively indexers in their daily work and will be soon applied in the CISMeF system.
BibTeX: @inproceedings{Michel2008, author = {Joubert, M and Darmoni, SJ and Avillach, P and Dahamna, B and Fieschi, M}, title = {Using Knowledge for Indexing Health Web Resources in a Quality-Controlled Gateway}, booktitle = {eHealth Beyond the Horizon - Get IT There - Proceedings of MIE2008 - The XXIst International Congress of the European Federation for Medical Informatics}, address = {Göteborg, Sweden}, month = {May}, year = {2008}, series = {Studies in Health Technology and Informatics}, volume = {136}, pages = {205 - 210}, url = {http://www.booksonline.iospress.nl/Content/View.aspx?piid=8724} }
3 Communication internationale Kerdelhué, G; Thirion, B; Dahamna, B & Darmoni, SJ. Cataloguing and displaying Web feeds from French language health sites: a Web 2.0 add-on to a health gateway. eHealth Beyond the Horizon - Get IT There - Proceedings of MIE2008 - The XXIst International Congress of the European Federation for Medical Informatics, Göteborg, Sweden, May, Studies in Health Technology and Informatics, Volume 136, Pages 33 - 38, 2008.
Abstract: Among the numerous new functionalities of the Internet, commonly called Web 2.0, Web syndication illustrates the trend for better and faster information sharing. Web feeds (a.k.a RSS feeds), which were used mostly on weblogs at first, are now also widely used in academic, scientific and institutional websites such as PubMed. As very few French language feeds were listed or catalogued in the Health field by the year of 2007, it was decided to implement them in the quality-controlled health gateway CISMeF ([French] acronym for Catalogue and Index of French Language Health Resources on the Internet). Furthermore, making full use of the nature of Web syndication, a Web feed aggregator was put online in to provide a dynamic news gateway called "CISMeF actualités" (http://www.chu-rouen.fr/actualites/). This article describes the process to retrieve and implement the Web feeds in the catalogue and how its terminology was adjusted to describe this new content. It also describes how the aggregator was put online and the features of this news gateway. CISMeF actualités was built accordingly to the editorial policy of CISMeF. Only a part of the Web feeds of the catalogue were included to display the most authoritative sources. Web feeds were also grouped by medical specialties and by countries using the prior indexing of websites with MeSH terms and the so-called metaterms. CISMeF actualités now displays 131 Web feeds across 40 different medical specialities, coming from 5 different countries. It is one example, among many, that static hypertext links can now easily and beneficially be completed, or replaced, by dynamic display of Web content using syndication feeds.
BibTeX: @inproceedings{Kerdelhue2008, author = {Kerdelhué, G and Thirion, B and Dahamna, B and Darmoni, SJ}, title = {Cataloguing and displaying Web feeds from French language health sites: a Web 2.0 add-on to a health gateway}, booktitle = {eHealth Beyond the Horizon - Get IT There - Proceedings of MIE2008 - The XXIst International Congress of the European Federation for Medical Informatics}, address = {Göteborg, Sweden}, month = {May}, year = {2008}, series = {Studies in Health Technology and Informatics}, volume = {136}, pages = {33 - 38}, url = {http://www.booksonline.iospress.nl/Content/View.aspx?piid=8694} }
3 Communication internationale Massari, P; Pereira, S; Thirion, B; Derville, A & Darmoni, SJ. Use of super-concepts to customize electronic medical records data display. eHealth Beyond the Horizon - Get IT There - Proceedings of MIE2008 - The XXIst International Congress of the European Federation for Medical Informatics, Göteborg, Sweden, May, Studies in Health Technology and Informatics, Volume 136, Pages 845 - 850, 2008.
Abstract: Patient medical record systems (MRS) merely offer static applications, in which mostly unstructured text is linked to coded data. In these applications the more common presentation is a time oriented one, which does not allow easily for data and information retrieval. Concept oriented views based on supper-concepts (metaterms) initially defined in CISMeF to optimize Web medical search, was implemented in our MRS as specialties views. This work shows that these terminological tools are able to facilitate information retrieval.
BibTeX: @inproceedings{Massari2008, author = {Massari, P and Pereira, S and Thirion, B and Derville, A and Darmoni, SJ}, title = {Use of super-concepts to customize electronic medical records data display}, booktitle = {eHealth Beyond the Horizon - Get IT There - Proceedings of MIE2008 - The XXIst International Congress of the European Federation for Medical Informatics}, address = {Göteborg, Sweden}, month = {May}, year = {2008}, series = {Studies in Health Technology and Informatics}, volume = {136}, pages = {845 - 850}, url = {http://www.booksonline.iospress.nl/Content/View.aspx?piid=8836} }
3 Communication internationale Merabti, T; Pereira, S; Letord, C; Lecroq, T; Dahamna, B; Joubert, M & Darmoni, SJ. Searching Related Resources in a Quality Controlled Health Gateway: a Feasibility Study. eHealth Beyond the Horizon - Get IT There - Proceedings of MIE2008 - The XXIst International Congress of the European Federation for Medical Informatics, Göteborg, Sweden, May, Studies in Health Technology and Informatics, Volume 136, Pages 235 - 240, 2008.
Abstract: Objective: The neighbors of a document are those documents in a corpus that are most similar to it. The objective of this paper is to develop and evaluate the related resources algorithm (CISMeF-RRA) in the context of a quality-controlled health gateway on the Internet CISMeF. Method: CISMeF-RRA is inspired by the PubMed Related Citations Articles. CISMeF-RRA combines statistical distances with a semantic distance using MeSH terms/qualifiers. Material: In this feasibility study an evaluation was performed using 50 CISMeF resources randomly chosen. Results: Overall, 49% of the related documents were ranked as relevant. Conclusion: if this feasibility study is confirmed by another evaluation of more resources, CISMeF-RRA will be implemented in the CISMeF catalog.
BibTeX: @inproceedings{Tayeb2008a, author = {Merabti, T and Pereira, S and Letord, C and Lecroq, T and Dahamna, B and Joubert, M and Darmoni, SJ}, title = {Searching Related Resources in a Quality Controlled Health Gateway: a Feasibility Study}, booktitle = {eHealth Beyond the Horizon - Get IT There - Proceedings of MIE2008 - The XXIst International Congress of the European Federation for Medical Informatics}, address = {Göteborg, Sweden}, month = {May}, year = {2008}, series = {Studies in Health Technology and Informatics}, volume = {136}, pages = {235 - 240}, url = {http://www.booksonline.iospress.nl/Content/View.aspx?piid=8729} }
3 Communication internationale Pereira, S; Massari, P; Joubert, M; Serrot, E & Darmoni, SJ. Exploring Multi-terminology Indexing of Discharge Summaries. , May, 2008. (Poster) MIE 2008 eHealth beyond the horizon ? get IT there Göteborg, Sweden May 25-28, 2008.
BibTeX: @inproceedings{Suzanne2008a, author = {Pereira, S and Massari, P and Joubert, M and Serrot, E and Darmoni, SJ}, title = {Exploring Multi-terminology Indexing of Discharge Summaries}, month = {May}, year = {2008}, note = {(Poster) MIE 2008 eHealth beyond the horizon ? get IT there Göteborg, Sweden May 25-28, 2008} }
3 Communication internationale Pereira, S; Névéol, A; Kerdelhué, G; Serrot, E; Joubert, M & Darmoni, SJ. Using multi-terminology indexing for the assignment of MeSH descriptors to health resources in a French online catalogue. AMIA symp., Pages 586-590, IOS Press, 2008.
Abstract: Background: In the specific context of French MeSH indexing in an Internet quality-controlled health gateway, we implemented a MeSH automatic indexing tool, the French Multi-Terminology Indexer (F-MTI). It implements a multi-terminology approach using four main medical terminologies in French and the mappings between them. Objective: In this paper, we attempt to determine which of lemmatization or stemming is better to be integrated in F-MTI, and to evaluate an approach using multi-terminologies. Methods: The algorithm was evaluated on a CISMeF corpus comprising 18,814 resources indexed manually. Results: Precision and recall are very close comparing lemmatization and stemming, and mono-terminology and multi-terminology. Conclusion: F-MTI will soon be used in the CISMeF production environment and in a Health MultiTerminology Server in French.
BibTeX: @inproceedings{Suzanne2008b, author = {Pereira, S and Névéol, A and Kerdelhué, G and Serrot, E and Joubert, M and Darmoni, SJ}, title = {Using multi-terminology indexing for the assignment of MeSH descriptors to health resources in a French online catalogue}, booktitle = {AMIA symp.}, publisher = {IOS Press}, year = {2008}, pages = {586-590} }
3 Communication internationale Salson, M; Lecroq, T; Léonard, M & Mouchard, L. Dynamic Burrows-Wheeler Transform. Proceedings of the Prague Stringology conference, #ctu#, Pages 13-25, 2008.
BibTeX: @inproceedings{Salson2008, author = {Salson, M and Lecroq, T and Léonard, M and Mouchard, L}, title = {Dynamic Burrows-Wheeler Transform}, booktitle = {Proceedings of the Prague Stringology conference}, address = {#ctu#}, year = {2008}, pages = {13--25}, url = {http://www.stringology.org/event/2008/p02.html} }
3 Communication internationale Soualmia, LF; Dahamna, B & Darmoni, SJ. Mining knowledge from Corpora: an Application to Retrieval and Indexing. eHealth Beyond the Horizon - Get IT There - Proceedings of MIE2008 - The XXIst International Congress of the European Federation for Medical Informatics, Göteborg, Sweden, May, Studies in Health Technology and Informatics, Volume 136, Pages 467-472, 2008.
Abstract: The present work aims at discovering new associations between medical concepts to be exploited as input in retrieval and indexing. Material and Methods: Association rules method is applied to documents. The process is carried out on three major document categories referring to e-health information consumers: health professionals, students and lay people. Association rules evaluation is founded on statistical measures combined with domain knowledge. Results: Association rules represent existing relations between medical concepts (60.62%) and new knowledge (54.21%). Based on observations, 463 expert rules are defined by medical librarians for retrieval and indexing. Conclusions: Association rules bear out existing relations, produce new knowledge and support users and indexers in document retrieval and indexing.
BibTeX: @inproceedings{Soualmia2008, author = {Soualmia, LF and Dahamna, B and Darmoni, SJ}, title = {Mining knowledge from Corpora: an Application to Retrieval and Indexing}, booktitle = {eHealth Beyond the Horizon - Get IT There - Proceedings of MIE2008 - The XXIst International Congress of the European Federation for Medical Informatics}, address = {Göteborg, Sweden}, month = {May}, year = {2008}, series = {Studies in Health Technology and Informatics}, volume = {136}, pages = {467-472}, url = {http://www.booksonline.iospress.nl/Content/View.aspx?piid=8769} }
4 Communication nationale Chanoni, E; Lecroq, T & Pauchet, A. Une nouvelle heuristique pour l'alignement de motifs 2D par programmation dynamique. Actes des Journées Francophones de Planification, Décision et Apprentissage pour la conduite de systèmes, Metz, France, Pages 83-91, 2008.
BibTeX: @inproceedings{Chanoni2008, author = {Chanoni, E and Lecroq, T and Pauchet, A}, title = {Une nouvelle heuristique pour l'alignement de motifs 2D par programmation dynamique}, booktitle = {Actes des Journées Francophones de Planification, Décision et Apprentissage pour la conduite de systèmes}, address = {Metz, France}, year = {2008}, pages = {83--91} }
4 Communication nationale Sakji, S. Recherche multi-terminologique de l'information de santé sur l'Internet.. CORIA (cinquième édition de la COnférence en Recherche d'Information et Applications), Tregastel, France, Mars, 2008. PSIP.
BibTeX: @inproceedings{SAKJI2008, author = {Sakji, S}, title = {Recherche multi-terminologique de l'information de santé sur l'Internet.}, booktitle = {CORIA (cinquième édition de la COnférence en Recherche d'Information et Applications)}, address = {Tregastel, France}, month = {Mars}, year = {2008}, note = {PSIP}, url = {http://coria08.irisa.fr} }
5 Résumé Darmoni, SJ; Pereira, S; Névéol, A; Massari, P; Dahamna, B; Letord, C; Kedelhué, G; Piot, J; Derville, A & Thirion, B. French Infobutton: an academic and... business perspective. AMIA Symp., Pages 920, IOS Press, 2008.
Abstract: Infobuttons are context-specific links between clinical information systems and other online information resources. The objective of this study is to describe a French Infobutton, which will be sold in the Frenchspeaking Health Information market.
BibTeX: @inproceedings{SJ.2008, author = {Darmoni, SJ and Pereira, S and Névéol, A and Massari, P and Dahamna, B and Letord, C and Kedelhué, G and Piot, J and Derville, A and Thirion, B}, title = {French Infobutton: an academic and... business perspective}, booktitle = {AMIA Symp.}, publisher = {IOS Press}, year = {2008}, pages = {920} }
5 Résumé Merabti, T; Pereira, S; Lecroq, T; Joubert, M & Darmoni, SJ. Inheritance of SNOMED CT Relations between Concepts by two Health Terminologies (SNOMED International and ICD-10). KR-MED 2008 - Representing and sharing knowledge using SNOMED International Conference, Phoenix, AZ, USA, June, 2008. InterSTIS.
BibTeX: @inproceedings{Tayeb2008, author = {Merabti, T and Pereira, S and Lecroq, T and Joubert, M and Darmoni, SJ}, title = {Inheritance of SNOMED CT Relations between Concepts by two Health Terminologies (SNOMED International and ICD-10)}, booktitle = {KR-MED 2008 - Representing and sharing knowledge using SNOMED International Conference}, address = {Phoenix, AZ, USA}, month = {June}, year = {2008}, note = {InterSTIS} }
5 Résumé Suzanne Pereira, Philippe Massari,, Antoine Buemi, Badisse Dahamna, Elisabeth Serrot, Michel Joubert, Stéfan J. Darmoni. Evaluation of two French SNOMED indexing systems with a parallel corpus. KR-MED 2008 - Representing and sharing knowledge using SNOMED International Conference, Phoenix, AZ, USA, June, 2008.
BibTeX: @inproceedings{Suzanne2008, author = {Suzanne Pereira, Philippe Massari,, Antoine Buemi, Badisse Dahamna, Elisabeth Serrot, Michel Joubert, Stéfan J. Darmoni}, title = {Evaluation of two French SNOMED indexing systems with a parallel corpus}, booktitle = {KR-MED 2008 - Representing and sharing knowledge using SNOMED International Conference}, address = {Phoenix, AZ, USA}, month = {June}, year = {2008} }
2007 1 Publication internationale Crochemore, M; Hancart, C & Lecroq, T. Algorithms on strings. , Cambridge University Press, 2007.
BibTeX: @book{Crochemore2007, author = {Crochemore, M and Hancart, C and Lecroq, T}, title = {Algorithms on strings}, publisher = {Cambridge University Press}, year = {2007} }
1 Publication internationale Cuggia, M; Darmoni, SJ; Garcelon, N; Soualmia, L & Bourde, A. Doc'UMVF: two search tools to provide quality-controlled teaching resources in French to students and teachers.. Int J Med Inform , Volume 76, Number 5-6, Pages 357-362, 2007.
Abstract: The UMVF project is a federation of medical teaching resources covering 32 medical schools in France. Today, the indexing of these resources is carried out manually by the CISMeF team at the University Hospital of Rouen. This indexing is based on MeSH thesaurus. We use a subset of SCORM metadata standard. This choice was defined in collaboration with the French Medical Virtual University consortium (French acronym: UMVF). Currently, with the UMVF searching tool (called Doc'UMVF), medical students can reach more than 3300 resources useful in their curriculum. Doc'UMVF is developed in close collaboration between the medical informatics laboratories of Rennes and Rouen. In this paper we present two complementary searching tools based on different methods and which are integrated and used to improve both the relevance and the coverage rate of the answers. A specific searching module has been built to retrieve specific resources concerning the National Medical Exam ENC ("Examen National Classant") is also available. Nevertheless, due to lack of time, numerous resources are not yet indexed. Therefore we have decided to use also automatic indexing method (Nomindex). This approach will be improved by further research works, resulting from Rouen and Geneva teams. After having built a searching meta-motor, our objective is to develop a meta-tool intended to index the whole set of digital pedagogical resources produced by the UMVF framework. This manual re-indexing will be carried out only for the most important resources (national references), with a more or less fine granularity.
BibTeX: @article{Cuggia2007, author = {Cuggia, M and Darmoni, SJ and Garcelon, N and Soualmia, L and Bourde, A}, title = {Doc'UMVF: two search tools to provide quality-controlled teaching resources in French to students and teachers.}, journal = {Int J Med Inform}, year = {2007}, volume = {76}, number = {5-6}, pages = {357--362}, doi = {10.1016/j.ijmedinf.2007.01.001} }
1 Publication internationale Duval, JP; Lecroq, T & Lefebvre, A. Efficient validation and construction of border arrays. London Algorithmics and Stringology 2006, Texts in Algorithms, Volume 8, Pages 135-147, King's College London Publications, 2007.
BibTeX: @incollection{Duval2007, author = {Duval, JP and Lecroq, T and Lefebvre, A}, title = {Efficient validation and construction of border arrays}, booktitle = {London Algorithmics and Stringology 2006}, publisher = {King's College London Publications}, year = {2007}, series = {Texts in Algorithms}, volume = {8}, pages = {135--147} }
1 Publication internationale Gehanno, JF; Takahashi, K; Darmoni, SJ & Weber, J. Citation classics in occupational medicine journals.. Scand J Work Environ Health , Aug, Volume 33, Number 4, Pages 245-251, 2007.
Abstract: OBJECTIVES: The number of citations an article receives after its publication not only reflects its impact on the scientific community, but also the impact of the institutions or countries in the field studied. In 1987, Garfield introduced the concept of "citation classics" for the best-cited articles. An analysis of top-cited articles coming from journals in the field of occupational medicine (eg, Occupational and Environmental Medicine, Scandinavian Journal of Work, Environment & Health) has not yet been reported. The purpose of this study was to assess whether or not such citation classics exist in this field and to analyze their characteristics. METHODS: The most frequently cited articles published in the five major journals in occupational medicine were identified using the database of Science Citation Index Expanded. The data were obtained by searching one year and one journal at a time. All of the articles cited more than 100 times were collected and analyzed. RESULTS: Among the 15 553 articles published by the five journals since 1949, only 85 articles had been cited more than 100 times. The oldest had been published in 1950 and the latest in 1997. The United Kingdom contributed 28% of the citation classics and the United States or Sweden produced 19 The most cited article had been cited 979 times. The main topics of articles were metabolism, occupational neoplasms, and work-related musculoskeletal disorders. CONCLUSIONS: Since the 1980s, Scandinavia and the United States have taken the leadership in the publication of citation classic papers. Nevertheless, according to the level of citations, the influence of literature published in occupational medicine journals remains limited.
BibTeX: @article{Gehanno2007, author = {Gehanno, JF and Takahashi, K and Darmoni, SJ and Weber, J}, title = {Citation classics in occupational medicine journals.}, month = {Aug}, journal = {Scand J Work Environ Health}, year = {2007}, volume = {33}, number = {4}, pages = {245--251} }
1 Publication internationale Gehanno, JF; Vu, T; Choudat, D & Conso, F. Devenir des internes de medecine du travail formes en France entre 2002 et 2004. Archives des Maladies Professionnelles et de l'Environnement , April, Volume 68, Pages 110-118, 2007.
BibTeX: @article{Gehanno2007b, author = {Gehanno, JF and Vu, T and Choudat, D and Conso, F}, title = {Devenir des internes de medecine du travail formes en France entre 2002 et 2004}, month = {April}, journal = {Archives des Maladies Professionnelles et de l'Environnement}, year = {2007}, volume = {68}, pages = {110-118}, url = {http://www.sciencedirect.com/science/article/B8JFG-4R0CFRC-2/2/ce5acd7798f06412549571cc53f5a9e1}, doi = {10.1016/S1775-8785(07)88908-9} }
1 Publication internationale T. Lecroq. Fast exact string matching algorithms. Information Processing Letters , Volume 102, Number 6, Pages 229-235, 2007.
BibTeX: @article{Lecroq2007, author = {T. Lecroq}, title = {Fast exact string matching algorithms}, journal = {Information Processing Letters}, year = {2007}, volume = {102}, number = {6}, pages = {229--235}, doi = {10.1016/j.ipl.2007.01.002} }
1 Publication internationale Renard, JM; Bourde, A; Cuggia, M; Garcelon, N; Souf, N; Darmoni, SJ; Beuscart, R & Brunetaud, JM. An Internet supported workflow for the publication process in UMVF (French Virtual Medical University).. Int J Med Inform , Volume 76, Number 5-6, Pages 363-368, 2007.
Abstract: The " Université Médicale Virtuelle Francophone" (UMVF) is a federation of French medical schools. Its main goal is to share the production and use of pedagogic medical resources generated by academic medical teachers. We developed an Open-Source application based upon a workflow system, which provides an improved publication process for the UMVF. For teachers, the tool permits easy and efficient upload of new educational resources. For web masters it provides a mechanism to easily locate and validate the resources. For librarian it provide a way to improve the efficiency of indexation. For all, the utility provides a workflow system to control the publication process. On the students side, the application improves the value of the UMVF repository by facilitating the publication of new resources and by providing an easy way to find a detailed description of a resource and to check any resource from the UMVF to ascertain its quality and integrity, even if the resource is an old deprecated version. The server tier of the application is used to implement the main workflow functionalities and is deployed on certified UMVF servers using the PHP language, an LDAP directory and an SQL database. The client tier of the application provides both the workflow and the search and check functionalities. A unique signature for each resource, was needed to provide security functionality and is implemented using a Digest algorithm. The testing performed by Rennes and Lille verified the functionality and conformity with our specifications.
BibTeX: @article{Renard2007, author = {Renard, JM and Bourde, A and Cuggia, M and Garcelon, N and Souf, N and Darmoni, SJ and Beuscart, R and Brunetaud, JM}, title = {An Internet supported workflow for the publication process in UMVF (French Virtual Medical University).}, journal = {Int J Med Inform}, year = {2007}, volume = {76}, number = {5-6}, pages = {363--368}, doi = {10.1016/j.ijmedinf.2007.01.010} }
1 Publication internationale Séralini, GE; Cellier, D & de Vendomois, JS. New analysis of a rat feeding study with a genetically modified maize reveals signs of hepatorenal toxicity. Arch. Environ. Contam. Toxicol , Volume 52, Pages 596-602, 2007.
BibTeX: @article{Seralini2007, author = {Séralini, GE and Cellier, D and de Vendomois, JS}, title = {New analysis of a rat feeding study with a genetically modified maize reveals signs of hepatorenal toxicity}, journal = {Arch. Environ. Contam. Toxicol}, year = {2007}, volume = {52}, pages = {596--602}, doi = {10.1007/s00244-006-0149-5} }
2 Publication nationale Florea, F. Indexation et recherche d'information combinée texte et image dans le catalogue de santé CISMeF. School: INSA de Rouen, 2007.
BibTeX: @phdthesis{Florea2007c, author = {Florea, F}, title = {Indexation et recherche d'information combinée texte et image dans le catalogue de santé CISMeF}, school = {INSA de Rouen}, year = {2007} }
2 Publication nationale Kerdelhué, G. Utilisation du thésaurus MeSH dans le site CISMeF.. Documentaliste - Sciences de l'information , Volume 44, Number 1, 2007.
BibTeX: @article{Kerdelhue2007, author = {Kerdelhué, G}, title = {Utilisation du thésaurus MeSH dans le site CISMeF.}, journal = {Documentaliste - Sciences de l'information}, year = {2007}, volume = {44}, number = {1}, url = {http://www.adbs.fr/utilisation-du-thesaurus-mesh-dans-le-site-cismef-15472.htm} }
2 Publication nationale Meslin, C. Utilisation de la table des suffixes pour la détection des répétitions. School: Université de Rouen, France, 2007.
BibTeX: @phdthesis{Meslin2007, author = {Meslin, C}, title = {Utilisation de la table des suffixes pour la d\'etection des r\'ep\'etitions}, school = {Universit\'e de Rouen, France}, year = {2007} }
2 Publication nationale Prieur, E. Méthodes et structures de données pour l'indexation et la détection de répétitions dans les séquences biologiques : les vecteurs de suffixes. School: Université de Rouen, France, 2007.
BibTeX: @phdthesis{Prieur2007, author = {Prieur, E}, title = {M\'ethodes et structures de donn\'ees pour l'indexation et la d\'etection de r\'ep\'etitions dans les s\'equences biologiques : les vecteurs de suffixes}, school = {Universit\'e de Rouen, France}, year = {2007} }
3 Communication internationale Darmoni, SJ. Information and Communication Technologies in Modern Health Library.. EAHIL Workshop, Cracovie, Pologne, September, 2007.
BibTeX: @inproceedings{SJ.2007, author = {Darmoni, SJ}, title = {Information and Communication Technologies in Modern Health Library.}, booktitle = {EAHIL Workshop}, address = {Cracovie, Pologne}, month = {September}, year = {2007}, url = {http://www.bm.cm-uj.krakow.pl/eahil/proceedings/oral/Darmoni.pdf} }
3 Communication internationale Florea, F; Buzuloiu, V; Rogozan, A; Bensrhair, A & Darmoni, SJ. Automatic Image Annotation Combining the Content and the Context of Medical Images. Proc. International Symposium on Signals, Circuits and Systems ISSCS 2007, Volume 1, Pages 1-4, 2007.
BibTeX: @inproceedings{Florea2007, author = {Florea, F and Buzuloiu, V and Rogozan, A and Bensrhair, A and Darmoni, SJ}, title = {Automatic Image Annotation Combining the Content and the Context of Medical Images}, booktitle = {Proc. International Symposium on Signals, Circuits and Systems ISSCS 2007}, year = {2007}, volume = {1}, pages = {1--4}, doi = {10.1109/ISSCS.2007.4292712} }
3 Communication internationale Florea, F; Rogozan, A; Barbu, E; Bensrhair, A & Darmoni, SJ. MedIC at ImageCLEF 2006: Automatic Image Categorization and Annotation using Combined Visual Representations. Lecture Notes in Computer Science , Alicante, Spain, Number 4730, Pages 670-677, 2007.
BibTeX: @inproceedings{Florea2007a, author = {Florea, F and Rogozan, A and Barbu, E and Bensrhair, A and Darmoni, SJ}, title = {MedIC at ImageCLEF 2006: Automatic Image Categorization and Annotation using Combined Visual Representations}, address = {Alicante, Spain}, journal = {Lecture Notes in Computer Science}, year = {2007}, number = {4730}, pages = {670-677}, url = {http://www.springerlink.com/content/w4832362m341/?k=florea}, doi = {10.1007/978-3-540-74999-8_82} }
3 Communication internationale Gehanno, JF; Thirion, B & Darmoni, SJ. Evaluation of Meta-concepts for Information Retrieval in a Quality-Controlled Health Gateway.. AMIA Symp., Pages 269-73, IOS Press, 2007.
Abstract: Background: CISMeF is a French quality-controlled health gateway that uses the MeSH thesaurus. We introduced two new concepts, metaterms (medical specialty which has semantic links with one or more MeSH terms, subheadings and resource types) and resource types. Objective: evaluate precision and recall of metaterms. Methods: We created 16 pairs of queries. Each pair concerned the same topic, but one used metaterms and one MeSH terms. To assess precision, each document retrieved by the query was classified as irrelevant, partly relevant or fully relevant. Results: the 16 queries yielded 943 documents for metaterm queries and 139 for MeSH term queries. The recall of MeSH term queries was 0.44 (compared to 1 for metaterm queries) and the precision were identical for MeSH term and metaterm queries. Conclusion: Metaconcept such as CISMeF metaterms allows a better recall with a similar precision that MeSH terms in a quality controlled health gateway.
BibTeX: @inproceedings{Gehanno2007a, author = {Gehanno, JF and Thirion, B and Darmoni, SJ}, title = {Evaluation of Meta-concepts for Information Retrieval in a Quality-Controlled Health Gateway.}, booktitle = {AMIA Symp.}, publisher = {IOS Press}, year = {2007}, pages = {269-73}, url = {http://telemedicina.unifesp.br/pub/AMIA/2007%20AMIA%20Proceedings/data/papers/papers/AMIA-0085-S2007.pdf} }
3 Communication internationale Loisel, A.; Loisel, A.; Chaignaud, N. & Kotowicz, J-Ph.. Designing a Human-Computer Dialog System for Medical Information Search. Proc. IEEE/WIC/ACM International Conferences on Web Intelligence and Intelligent Agent Technology Workshops, Pages 350-353, 2007.
Abstract: This article presents the Cogni-CISMeF project, which aims at improving medical information search in the CISMeF system by including a conversational agent to interact with the user in natural language. To study the cognitive processes involved during the information search, a bottom-up methodology was adopted. Experiments have been set up to obtain human dialogs dealing with medical information search. The analysis of these dialogs underlined the establishment of a common ground and accommodation effects to the user. A model of artificial agent is proposed. It leads the user in its information search by proposing to him examples, assistance and choices.
BibTeX: @inproceedings{Loisel2007, author = {Loisel, A. and Loisel, A. and Chaignaud, N. and Kotowicz, J-Ph.}, title = {Designing a Human-Computer Dialog System for Medical Information Search}, booktitle = {Proc. IEEE/WIC/ACM International Conferences on Web Intelligence and Intelligent Agent Technology Workshops}, year = {2007}, pages = {350--353}, doi = {10.1109/WIIATW.2007.4427605} }
3 Communication internationale Névéol, A.; Pereira, S.; Kerdelhué, G.; Dahamna, B.; Joubert, M. & Darmoni, SJ. Evaluation of a Simple Method for the Automatic Assignment of MeSH Descriptors to Health Resources in a French Online Catalogue.. Stud Health Technol Inform , U.S. National Library of Medicine, National Institutes of Health, Bethesda, USA., Volume 129, Pages 407-411, 2007.
Abstract: Background: The growing number of resources to be indexed in the catalogue of online health resources in French (CISMeF) calls for curating strategies involving automatic indexing tools while maintaining the catalogue's high indexing quality standards. Objective: To develop a simple automatic tool that retrieves MeSH descriptors from documents titles. Methods: In parallel to research on advanced indexing methods, a bag-of-words tool was developed for timely inclusion in CISMeF's maintenance system. An evaluation was carried out on a corpus of 99 documents. The indexing sets retrieved by the automatic tool were compared to manual indexing based on the title and on the full text of resources. Results: 58% of the major main headings were retrieved by the bag-of-words algorithm and the precision on main heading retrieval was 69%. Conclusion: Bag-of-words indexing has effectively been used on selected resources to be included in CISMeF since August 2006. Meanwhile, on going work aims at improving the current version of the tool.
BibTeX: @article{Neveol2007, author = {Névéol, A. and Pereira, S. and Kerdelhué, G. and Dahamna, B. and Joubert, M. and Darmoni, SJ}, title = {Evaluation of a Simple Method for the Automatic Assignment of MeSH Descriptors to Health Resources in a French Online Catalogue.}, address = {U.S. National Library of Medicine, National Institutes of Health, Bethesda, USA.}, journal = {Stud Health Technol Inform}, year = {2007}, volume = {129}, pages = {407--411} }
3 Communication internationale Névéol, A; Shooshan, S; Humphrey, S; Rindflesh, T & Aronson, AR. Multiple approaches to fine-grained indexing of the biomedical literature.. Pac Symp Biocomput , Pages 292-303, 2007.
Abstract: The number of articles in the MEDLINE database is expected to increase tremendously in the coming years. To ensure that all these documents are indexed with continuing high quality, it is necessary to develop tools and methods that help the indexers in their daily task. We present three methods addressing a novel aspect of automatic indexing of the biomedical literature, namely producing MeSH main heading/subheading pair recommendations. The methods, (dictionary-based, post- processing rules and Natural Language Processing rules) are described and evaluated on a genetics-related corpus. The best overall performance is obtained for the subheading genetics (70% precision and 17% recall with post-processing rules, 48% precision and 37% recall with the dictionary-based method). Future work will address extending this work to all MeSH subheadings and a more thorough study of method combination.
BibTeX: @inproceedings{Neveol2007a, author = {Névéol, A and Shooshan, S and Humphrey, S and Rindflesh, T and Aronson, AR}, title = {Multiple approaches to fine-grained indexing of the biomedical literature.}, journal = {Pac Symp Biocomput}, year = {2007}, pages = {292--303}, url = {http://psb.stanford.edu/psb-online/proceedings/psb07/neveol.pdf} }
3 Communication internationale Aurélie Névéol.; Suzanne Pereira; Gaëlle Lortal & Stéfan Darmoni. Using NooJ for analyzing medical texts in French. NOOJ Conference, Barcelona, Spain, june, 2007.
Abstract: The catalog of online medical resources in French (CISMeF) is a quality controlled health gateway selecting and describing major institutional medical resources in French. In order to update the catalog in a timely fashion, research efforts have addressed the development of automatic tools to process resources selected for inclusion in the catalogue. The result of the automatic processing, namely a description of resources in the form of MeSH descriptors, may be reviewed by CISMeF indexers before inclusion in the catalogue. After a brief introduction to CISMeF and the task of MeSH indexing, we review the reasons that led to chose NooJ as a text analysis tool and describe how it was integrated in a MeSH indexing system (MAIF). On-going work focuses on further development of medical text analysis material (NooJ dictionary and transducers) for MeSH indexing, to be eventually extended to multi-terminological indexing and Summary of Product Characteristics (SPC) analysis. NOOJ applications for other terminology such as ICD-10, SNOMED international, CCAM (French equivalent of US CPT) and TUV (French terminology for therapeutical and clinical notions for the use of drugs) will therefore be studied.
BibTeX: @inproceedings{Neveol2007b, author = {Aurélie Névéol. and Suzanne Pereira and Gaëlle Lortal and Stéfan Darmoni}, title = {Using NooJ for analyzing medical texts in French}, booktitle = {NOOJ Conference}, address = {Barcelona, Spain}, month = {june}, year = {2007}, url = {http://vodel.insa-rouen.fr/publications/cismef-nooj2007/} }
3 Communication internationale Soualmia, L & Dahamna, B. Knowledge Acquisition from a Medical Corpus: Use and Return on Experiences. Artificial Intelligence in Medicine Artificial Intelligence in Medicine, Lecture Notes in Computer Science, Volume 4594, Pages 160-164, Springer Berlin / Heidelberg, 2007.
Abstract: The present work aims at refining and expanding user?s queries thanks to association rules. We adapted the A-Close algorithm to a medical corpus indexed by MeSH descriptors. The originality of our approach lies in the use of the association rules in the information retrieval process and the exploitation of the structure of the domain knowledge to evaluate the association rules. The results show the usefulness of this query expansion approach. Based on observations, new knowledge is modelled as expert rules.
BibTeX: @inproceedings{Soualmia2007, author = {Soualmia, L and Dahamna, B}, title = {Knowledge Acquisition from a Medical Corpus: Use and Return on Experiences}, booktitle = {Artificial Intelligence in Medicine}, journal = {Artificial Intelligence in Medicine}, publisher = {Springer Berlin / Heidelberg}, year = {2007}, series = {Lecture Notes in Computer Science}, volume = {4594}, pages = {160-164}, url = {http://www.springerlink.com/index/j165732mqm231012.pdf}, doi = {10.1007/978-3-540-73599-1\_19} }
4 Communication nationale Darmoni, SJ. Recherche documentaire. Internet et Pédagogie Médicale (IPM), Strasbourg, France, Octobre, 2007.
Abstract: L'objectif est de couvrir le maximun des cours concernant la recherche documentaire par une mutualisation de ces cours. Expérience de Rouen.
BibTeX: @inproceedings{Darmoni2007a, author = {Darmoni, SJ}, title = {Recherche documentaire}, booktitle = {Internet et Pédagogie Médicale (IPM)}, address = {Strasbourg, France}, month = {Octobre}, year = {2007}, url = {http://www.canal-u.fr/index.php/canalu/producteurs/canal_u_medecine/dossier_programmes/pedagogie_des_sciences_medicales/colloque_et_evenement/internet_et_pedagogie_medicale_strasbourg_2007/ipm_2007} }
4 Communication nationale Duval, JP; Lecroq, T & Lefebvre, A. Efficient validation and construction of Knuth-Morris-Pratt arrays. , 2007. Conference in honor of Donald E. Knuth, Bordeaux, France, 2007.
BibTeX: @misc{Duval, author = {Duval, JP and Lecroq, T and Lefebvre, A}, title = {Efficient validation and construction of Knuth-Morris-Pratt arrays}, year = {2007}, note = {Conference in honor of Donald E. Knuth, Bordeaux, France, 2007} }
4 Communication nationale Florea, F; Cornea, V; Rogozan, A; Bensrhair, A & Darmoni, SJ. Fusion des approches visuelles et contextuelles pour l'annotation des images médicales. Extraction et Gestion des Connaissances (EGC), Namur, Belgique, 23-26 Janvier, Volume 2, Pages 421-426, 2007.
BibTeX: @inproceedings{Florea2007b, author = {Florea, F and Cornea, V and Rogozan, A and Bensrhair, A and Darmoni, SJ}, title = {Fusion des approches visuelles et contextuelles pour l'annotation des images m{\'e}dicales}, booktitle = {Extraction et Gestion des Connaissances (EGC)}, address = {Namur, Belgique}, month = {23-26 Janvier}, year = {2007}, volume = {2}, pages = {421-426} }
4 Communication nationale Kotowicz, JP.; Chaignaud, N.; Pecuchet, JP.; Loisel, A; Holzem, M.; Delavigne, V. & Darmoni, SJ.. Cogni-CISMeF : étude des processus cognitifs lors de la construction d'une requête dans un syste?me de gestion des connaissances me?dicales (CISMeF). Atelier Traitement des Connaissances, Apprentissage et NTIC, Plate-forme AFIA'07, Grenoble, 2-6 juillet, Pages 155-174, 2007.
BibTeX: @inproceedings{Kotowicz2007, author = {Kotowicz, JP. and Chaignaud, N. and Pecuchet, JP. and Loisel, A and Holzem, M. and Delavigne, V. and Darmoni, SJ.}, title = {Cogni-CISMeF : étude des processus cognitifs lors de la construction d'une requête dans un syste?me de gestion des connaissances me?dicales (CISMeF)}, booktitle = {Atelier Traitement des Connaissances, Apprentissage et NTIC, Plate-forme AFIA'07}, address = {Grenoble}, month = {2-6 juillet}, year = {2007}, pages = {155-174} }
4 Communication nationale Pereira, S; Massari, P; Joubert, M & Darmoni, SJ. Utilisation de métatermes pour la recherche d'information dans les dossiers médicaux.. JFIM, Bamako, Mali, Janvier, 2007.
BibTeX: @inproceedings{Pereira2007, author = {Pereira, S and Massari, P and Joubert, M and Darmoni, SJ}, title = {Utilisation de métatermes pour la recherche d'information dans les dossiers médicaux.}, booktitle = {JFIM}, address = {Bamako, Mali}, month = {Janvier}, year = {2007} }
4 Communication nationale Raaf, H; Abdeddaïm, S & Messabih, B. Beetweeness centrality of metabolic network using Elementary Net Systems. Actes du Quatrième Colloque sur l'Optimisation et les Systèmes d'Information COSI'2007, Oran, Algérie, Pages 567-577, 2007.
BibTeX: @inproceedings{Raaf2007, author = {Raaf, H and Abdeddaïm, S and Messabih, B}, title = {Beetweeness centrality of metabolic network using Elementary Net Systems}, booktitle = {Actes du Quatrième Colloque sur l'Optimisation et les Systèmes d'Information COSI'2007}, address = {Oran, Algérie}, year = {2007}, pages = {567--577} }
5 Résumé Caulin, C; Autret-Leca, E; Baumelou, A; Trémolières, F; German, C; Darmoni, SJ; Thirion B & Forget, JF. The therapeutic guidelines database, an original new tool. Fundamental & Clinical Pharmacology , Volume 21, Number s1, Pages 1-99, 2007.
Abstract: Introduction: Physicians are expected to prescribe according to current scientific data and evidence-based medicine, as embodied by official treatment guidelines. In order to apply these, physicians should be aware of ways to access them, and smoothly integrate their content into their daily practice. Our objectives were to provide validated summaries of treatment guidelines, to facilitate access to original documents, and to keep physicians informed on updates and related news. Methods: For one hundred most frequently encountered diseases, expert writers (GPs and specialists) were chosen to produce a summary of current validated treatment guidelines. The outline and content of these summaries were harmonized in order to increase user-friendliness. Tree-shaped decision algorithms constitute the core of each summary. They are completed with disease and diagnosis information, specific clinical situations, patient information as well as drug and non drug treatment information (all available medicinal products are listed). Whenever possible, these summaries are weighed with grades of recommendation corresponding to scientific levels of evidence, as defined by the HAS (high autority of health). Results: The therapeutic guidelines database is available through: - a website which proposes therapeutic guidelines summaries and related information regarding diseases most frequently encountered by GPs. A search engine has been integrated, which allows physicians to locate French and international treatment guidelines. This engine transforms queries expressed in usual French medical terms into MeSH (medical subjects headings) - compatible queries in order to search French and international databases efficaciously. We created a watch team to update the database and inform physicians about the latest available guidelines as well as other recent guidelinerelated news. - a pocket book with one hundred treatment strategies based on guideline summaries. Conclusion: The therapeutic guidelines database is the first one for Frenchspeaking healthcare professionals. It allows access to validated therapeutic guidelines (summaries, full-text guidelines, as well as related news). The next step is to measure the effects of this new tool on GPs daily practice.
BibTeX: @article{C2007, author = {Caulin, C and Autret-Leca, E and Baumelou, A and Trémolières, F and German, C and Darmoni, SJ and Thirion B and Forget, JF}, title = {The therapeutic guidelines database, an original new tool}, journal = {Fundamental \& Clinical Pharmacology}, year = {2007}, volume = {21}, number = {s1}, pages = {1-99}, doi = {10.1111/j.1472-8206.2007.00481.x} }
5 Résumé Darmoni, SJ; Thirion, B; Florea, F; Rogozan, A; Letord, C; Kerdelhué, G & Dacher, JN. Affiliation of a resource type to a MeSH term in a quality-controlled health gateway. Medinfo, 2007.
BibTeX: @inproceedings{Darmoni2007, author = {Darmoni, SJ and Thirion, B and Florea, F and Rogozan, A and Letord, C and Kerdelhué, G and Dacher, JN}, title = {Affiliation of a resource type to a MeSH term in a quality-controlled health gateway}, booktitle = {Medinfo}, year = {2007}, url = {http://www.chu-rouen.fr/l@stics/affiliation_medinfo_2007.pdf} }
5 Résumé Thirion, B; Pereira, S; Névéol, A; Dahamna, B & Darmoni, SJ.. French MeSH Browser: a cross-language tool to access MEDLINE/PubMed.. AMIA symp., Pages 1132, IOS Press, 2007.
Abstract: When searching the medical literature, health professionals and lay people strongly prefer to use their native language. Therefore, Medical Subject Headings (MeSH(R)) translations would be helpful to those who are not fluent in English to access scientific papers indexed in the MEDLINE(R) bibliographic database. Furthermore, medical terminologies such as MeSH are challenging in any language. Therefore, a French MeSH Browser was developed.
BibTeX: @inproceedings{Benoit2007, author = {Thirion, B and Pereira, S and Névéol, A and Dahamna, B and Darmoni, SJ.}, title = {French MeSH Browser: a cross-language tool to access MEDLINE/PubMed.}, booktitle = {AMIA symp.}, publisher = {IOS Press}, year = {2007}, pages = {1132}, url = {http://telemedicina.unifesp.br/pub/AMIA/2007%20AMIA%20Proceedings/data/papers/posters/AMIA-0243-S2007.pdf} }
2006 1 Publication internationale Crochemore, M & Lecroq, T. Text searching and indexing. Formal Languages and Applications, Studies in Computational Intelligence, Volume 25, Pages 43-80, Springer Verlag Berlin, 2006.
BibTeX: @incollection{Crochemore2006, author = {Crochemore, M and Lecroq, T}, title = {Text searching and indexing}, booktitle = {Formal Languages and Applications}, publisher = {Springer Verlag Berlin}, year = {2006}, series = {Studies in Computational Intelligence}, volume = {25}, pages = {43--80}, doi = {10.1007/978-3-540-33461-3_3} }
1 Publication internationale Darmoni, SJ; Névéol, A; Renard, JM; Gehanno, JF; Soualmia, L; Dahamna, B & Thirion, B. A MEDLINE categorization algorithm.. BMC Med Inform Decis Mak , Volume 6, Pages 7, 2006.
Abstract: BACKGROUND: Categorization is designed to enhance resource description by organizing content description so as to enable the reader to grasp quickly and easily what are the main topics discussed in it. The objective of this work is to propose a categorization algorithm to classify a set of scientific articles indexed with the MeSH thesaurus, and in particular those of the MEDLINE bibliographic database. In a large bibliographic database such as MEDLINE, finding materials of particular interest to a specialty group, or relevant to a particular audience, can be difficult. The categorization refines the retrieval of indexed material. In the CISMeF terminology, metaterms can be considered as super-concepts. They were primarily conceived to improve recall in the CISMeF quality-controlled health gateway. METHODS: The MEDLINE categorization algorithm (MCA) is based on semantic links existing between MeSH terms and metaterms on the one hand and between MeSH subheadings and metaterms on the other hand. These links are used to automatically infer a list of metaterms from any MeSH term/subheading indexing. Medical librarians manually select the semantic links. RESULTS: The MEDLINE categorization algorithm lists the medical specialties relevant to a MEDLINE file by decreasing order of their importance. The MEDLINE categorization algorithm is available on a Web site. It can run on any MEDLINE file in a batch mode. As an example, the top 3 medical specialties for the set of 60 articles published in BioMed Central Medical Informatics & Decision Making, which are currently indexed in MEDLINE are: information science, organization and administration and medical informatics. CONCLUSION: We have presented a MEDLINE categorization algorithm in order to classify the medical specialties addressed in any MEDLINE file in the form of a ranked list of relevant specialties. The categorization method introduced in this paper is based on the manual indexing of resources with MeSH (terms/subheadings) pairs by NLM indexers. This algorithm may be used as a new bibliometric tool.
BibTeX: @article{Darmoni2006, author = {Darmoni, SJ and Névéol, A and Renard, JM and Gehanno, JF and Soualmia, L and Dahamna, B and Thirion, B}, title = {A MEDLINE categorization algorithm.}, journal = {BMC Med Inform Decis Mak}, year = {2006}, volume = {6}, pages = {7}, doi = {10.1186/1472-6947-6-7} }
1 Publication internationale Ernoult, A; Tremauville, Y; Cellier, D; Margerie, P; Langlois, E & Alard, D. Potential landscape drivers of biodiversity components in a flood plain: Past or present patterns?. Biological Conservation , Volume 127, Number 1, Pages 1-17, 2006.
BibTeX: @article{Ernoult2006, author = {Ernoult, A and Tremauville, Y and Cellier, D and Margerie, P and Langlois, E and Alard, D}, title = {Potential landscape drivers of biodiversity components in a flood plain: Past or present patterns?}, journal = {Biological Conservation}, year = {2006}, volume = {127}, number = {1}, pages = {1--17}, doi = {10.1016/j.biocon.2005.07.008} }
1 Publication internationale Névéol, A; Rogozan, Aé & Darmoni, SJ. Automatic indexing of online health resources for a French quality controlled gateway. Information Processing & Management , May, Volume 42, Number 3, Pages 695-709, 2006.
Abstract: The profusion of online resources calls for tools and methods to help Internet users find precisely what they are looking for. Quality controlled gateway CISMeF provides such services for health resources. However, the human cost of maintaining and updating the catalogue are increasingly high. This paper presents the automatic indexing system currently developed in the CISMeF team to be used as such for preliminary indexing, or after human reviewing for the final indexing. The system architecture, using the INTEX platform for MeSH term extraction is detailed. The results of a first evaluation tend to indicate that the automatic indexing strategy is relevant, as it achieves a precision comparable to that of other existing operational systems. Moreover, the system presented in this paper retrieves keyword/qualifier pairs as opposed to single terms, therefore providing a significantly more precise indexing. Further development and tests will be carried out in order to improve the coverage of the dictionaries, and validate the efficiency of the system in the indexers' everyday work.
BibTeX: @article{Neveol2006b, author = {Névéol, A and Rogozan, Aé and Darmoni, SJ}, title = {Automatic indexing of online health resources for a French quality controlled gateway}, month = {May}, journal = {Information Processing \& Management}, year = {2006}, volume = {42}, number = {3}, pages = {695-709}, doi = {10.1016/j.ipm.2005.01.003} }
1 Publication internationale Robu, I; Robu, V & Thirion, B. An introduction to the Semantic Web for health sciences librarians.. J Med Libr Assoc , Apr, Volume 94, Number 2, Pages 198-205, 2006.
Abstract: OBJECTIVES: The paper (1) introduces health sciences librarians to the main concepts and principles of the Semantic Web (SW) and (2) briefly reviews a number of projects on the handling of biomedical information that uses SW technology. METHODOLOGY: The paper is structured into two main parts. "Semantic Web Technology" provides a high-level description, with examples, of the main standards and concepts: extensible markup language (XML), Resource Description Framework (RDF), RDF Schema (RDFS), ontologies, and their utility in information retrieval, concluding with mention of more advanced SW languages and their characteristics. "Semantic Web Applications and Research Projects in the Biomedical Field" is a brief review of the Unified Medical Language System (UMLS), Generalised Architecture for Languages, Encyclopedias and Nomenclatures in Medicine (GALEN), HealthCyberMap, LinkBase, and the thesaurus of the National Cancer Institute (NCI). The paper also mentions other benefits and by-products of the SW, citing projects related to them. DISCUSSION AND CONCLUSIONS: Some of the problems facing the SW vision are presented, especially the ways in which the librarians' expertise in organizing knowledge and in structuring information may contribute to SW projects.
BibTeX: @article{Robu2006, author = {Robu, I and Robu, V and Thirion, B}, title = {An introduction to the Semantic Web for health sciences librarians.}, month = {Apr}, journal = {J Med Libr Assoc}, year = {2006}, volume = {94}, number = {2}, pages = {198--205}, url = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=1435839} }
1 Publication internationale Sibert, L; Darmoni, SJ; Dahamna, B; Hellot, MF; Weber, J & Charlin, B. On line clinical reasoning assessment with Script Concordance test in urology: results of a French pilot study.. BMC Med Educ , Volume 6, Pages 45, 2006.
Abstract: BACKGROUND: The Script Concordance test (SC) test is an assessment tool that measures the capacity to solve ill-defined problems, that is, reasoning in a context of uncertainty. This study assesses the feasibility, reliability and validity of the SC test made available on the Web to French urologists. METHODS: A 97 items SC test was developed based on major educational objectives of French urology training programmes. A secure Web site was created with two sequential modules: a) The first one for the reference panel to elaborate the scoring system; b) The second for candidates with different levels of experience in urology: Board certified urologists, chief-residents, residents, medical students. All participants were recruited on a voluntary basis. Statistical analysis included descriptive statistics of the participants' scores and factorial analysis of variance (ANOVA) to study differences between groups' means. Reliability was evaluated with Cronbach's alpha coefficient. RESULTS: The on line SC test has been operational since June 2004. Twenty-six faculty members constituted the reference panel. During the following 10 months, 207 participants took the test online (124 urologists, 29 chief-residents, 38 residents, 16 students). No technical problem was encountered. Forty-five percent of the participants completed the test partially only. Differences between the means scores for the 4 groups were statistically significant (P = 0.0123). The Bonferroni post-hoc correction indicated that significant differences were present between students and chief-residents, between students and urologists. There were no differences between chief-residents and urologists. Reliability coefficient was 0.734 for the total group of participants. CONCLUSION: Feasibility of Web-based SC test was proved successful by the large number of participants who participated in a few months. This Web site has permitted to quickly confirm reliability of the SC test and develop strategy to improve construct validity of the test when applied in the field of urology. Nevertheless, optimisation of the SC test content, with a smaller number of items will be necessary. Virtual medical education initiative such as this SC test delivered on the Internet warrants consideration in the current context of national pre-residency certification examination in France.
BibTeX: @article{Sibert2006a, author = {Sibert, L and Darmoni, SJ and Dahamna, B and Hellot, MF and Weber, J and Charlin, B}, title = {On line clinical reasoning assessment with Script Concordance test in urology: results of a French pilot study.}, journal = {BMC Med Educ}, year = {2006}, volume = {6}, pages = {45}, doi = {10.1186/1472-6920-6-45} }
1 Publication internationale Sibert, L; Darmoni, SJ; Thirion, B; Douyère, M; Dahamna, B & Weber, J. A web-based teaching resource to prepare for final undergraduate examination: a French pilot study.. Med Teach , Mar, Volume 28, Number 2, Pages 158-164, 2006.
Abstract: Access to accurate and quality-controlled health information on the Internet for medical students is not an easy task. CISMeF is the search tool of a MeSH-indexed directory of medical Internet resources in French. Since 2004, a new French Pre-Residency Examination (PRE) is compulsory for all medical students in the 6th year of the curriculum. The goal of this study is to evaluate CISMeF as a tool to provide teaching resources available on the Internet covering PRE material. The CISMeF terminology and the PRE CISMeF module are described. To assess the CISMeF performance in covering PRE program, its precision (number of relevant resources/number of overall resources extracted by CISMeF) and coverage (number of PRE questions covered by at least one resource in the CISMeF gateway) were computed. The CISMeF module for the new French Pre-Residency Examination is efficient as it already covers 95.7% of the program with a precision of 82.2 Our data demonstrates that CISMeF is acceptable to guide students' learning and should be a useful teaching resource for the preparation of the French Pre-Residency Examination.
BibTeX: @article{Sibert2006, author = {Sibert, L and Darmoni, SJ and Thirion, B and Douyère, M and Dahamna, B and Weber, J}, title = {A web-based teaching resource to prepare for final undergraduate examination: a French pilot study.}, month = {Mar}, journal = {Med Teach}, year = {2006}, volume = {28}, number = {2}, pages = {158--164}, doi = {10.1080/01421590500312920} }
2 Publication nationale Gehanno, JF; Kerdelhué, G; Darmoni, SJ; Fantoni, S; Caillard, JF & Frimat, P. Veille documentaire. Archives des Maladies Professionnelles et de l'Environnement , May, Volume 67, Pages 266-267, 2006.
BibTeX: @article{Gehanno2006, author = {Gehanno, JF and Kerdelhué, G and Darmoni, SJ and Fantoni, S and Caillard, JF and Frimat, P}, title = {Veille documentaire}, month = {May}, journal = {Archives des Maladies Professionnelles et de l'Environnement}, year = {2006}, volume = {67}, pages = {266-267}, url = {http://www.sciencedirect.com/science/article/B8JFG-4PR42F2-5G/2/1968f7b5e0022da180878cb2a4d3f887}, doi = {10.1016/S1775-8785(06)78134-6} }
2 Publication nationale Névéol, A & Darmoni, SJ. Terminologie et accès à l'information en santé.. Terminologie et accès à l'information, October, Pages 141-159, Hermes Science Publications, 2006.
BibTeX: @inproceedings{Neveol2006c, author = {Névéol, A and Darmoni, SJ}, title = {Terminologie et accès à l'information en santé.}, booktitle = {Terminologie et accès à l'information}, month = {October}, publisher = {Hermes Science Publications}, year = {2006}, pages = {141-159}, url = {http://www.lavoisier.fr/fr/livres/index.asp?texte=2746212950&select=isbn&from=Hermes} }
2 Publication nationale Paris, C & Gehanno, JF. Les apports de l'Evidence Based Medicine dans les pratiques de surveillance du médecin du travail.. Archives des Maladies Professionnelles et de l'Environnement , Volume 67, Number 2, Pages 154-7, 2006.
BibTeX: @article{Paris2006, author = {Paris, C and Gehanno, JF}, title = {Les apports de l'Evidence Based Medicine dans les pratiques de surveillance du médecin du travail.}, journal = {Archives des Maladies Professionnelles et de l'Environnement}, year = {2006}, volume = {67}, number = {2}, pages = {154-7}, doi = {ADMP-05-2006-67-2-1250-3274-101019-200517911} }
3 Communication internationale Duval, JP; Lecroq, T & Lefebvre, A. Efficient validation and construction of border arrays. Proceedings of the 11th Mons Days of Theoretical Computer Science, Rennes, France, Pages 179-189, 2006.
BibTeX: @inproceedings{Duval2006, author = {Duval, JP and Lecroq, T and Lefebvre, A}, title = {Efficient validation and construction of border arrays}, booktitle = {Proceedings of the 11th Mons Days of Theoretical Computer Science}, address = {Rennes, France}, year = {2006}, pages = {179--189}, url = {http://www.irisa.fr/JM06/Papers/duval.pdf} }
3 Communication internationale Florea, F; Barbu, E; Rogozan, A & Bensrhair, A. Using texture-based symbolic features for medical image representation. Proc. 18th International Conference on Pattern Recognition ICPR 2006, Volume 2, Pages 946-949, 2006.
BibTeX: @inproceedings{Florea2006, author = {Florea, F and Barbu, E and Rogozan, A and Bensrhair, A}, title = {Using texture-based symbolic features for medical image representation}, booktitle = {Proc. 18th International Conference on Pattern Recognition ICPR 2006}, year = {2006}, volume = {2}, pages = {946--949}, doi = {10.1109/ICPR.2006.1159} }
3 Communication internationale Florea, F; Barbu, E; Rogozan, A & Bensrhair, A. Multi-modal categorization of medical images for automatic indexing of on-line health-resources. 6th International Workshop on Pattern Recognition in Information Systems (PRIS2006), Paphos, Cyprus, 23 - 27, May 2006, Pages 48-57, 2006.
BibTeX: @inproceedings{Florea2006f, author = {Florea, F and Barbu, E and Rogozan, A and Bensrhair, A}, title = {Multi-modal categorization of medical images for automatic indexing of on-line health-resources}, booktitle = {6th International Workshop on Pattern Recognition in Information Systems (PRIS2006)}, address = {Paphos, Cyprus}, month = {23 - 27, May 2006}, year = {2006}, pages = {48-57} }
3 Communication internationale Florea, F; Barbu, E; Rogozan, A; Bensrhair, A & Buzuloiu, V. Medical Image Categorization using a Texture Based Symbolic Description. Proc. IEEE International Conference on Image Processing, Pages 1489-1492, 2006.
BibTeX: @inproceedings{Florea2006a, author = {Florea, F and Barbu, E and Rogozan, A and Bensrhair, A and Buzuloiu, V}, title = {Medical Image Categorization using a Texture Based Symbolic Description}, booktitle = {Proc. IEEE International Conference on Image Processing}, year = {2006}, pages = {1489--1492}, doi = {10.1109/ICIP.2006.312564} }
3 Communication internationale Florea, F; Rogozan, A; Bensrhair, A & Darmoni, SJ. Comparison of Feature-Selection and Classification Techniques for Medical Image Modality Categorization. 10th IEEE International Conference on Optimization of Electrical and Electronic Equipment (OPTIM2006), Brasov, Romania, May 18-19, Volume 4, Pages 161-168, 2006.
BibTeX: @inproceedings{Florea2006h, author = {Florea, F and Rogozan, A and Bensrhair, A and Darmoni, SJ}, title = {Comparison of Feature-Selection and Classification Techniques for Medical Image Modality Categorization}, booktitle = {10th IEEE International Conference on Optimization of Electrical and Electronic Equipment (OPTIM2006)}, address = {Brasov, Romania}, month = {May 18-19}, year = {2006}, volume = {4}, pages = {161-168}, url = {http://asi.insa-rouen.fr/~fflorea/documents/rapport_intern_PSI_FFI.pdf} }
3 Communication internationale Florea, F; Rogozan, A; Cornea, V; Bensrhair, A & Darmoni, SJ. MedIC/CISMeF at ImageCLEF 2006: Image Annotation and Retrieval Tasks. CLEF 2006 Workshop, Alicante, Spain, 20 - 22 September, 2006.
BibTeX: @inproceedings{Florea2006g, author = {Florea, F and Rogozan, A and Cornea, V and Bensrhair, A and Darmoni, SJ}, title = {MedIC/CISMeF at ImageCLEF 2006: Image Annotation and Retrieval Tasks}, booktitle = {CLEF 2006 Workshop}, address = {Alicante, Spain}, month = {20 - 22 September}, year = {2006}, url = {http://www.clef-campaign.org/2006/working_notes/workingnotes2006/floreaCLEF2006.pdf} }
3 Communication internationale Gehanno, JF; Darmoni, SJ; Weber, J & Caillard, JF. Citation classics in occupational medicine journals.. 28th Congress of the International Commission of Occupational Health, Milan, Italy, June, 2006.
BibTeX: @inproceedings{Gehanno2006b, author = {Gehanno, JF and Darmoni, SJ and Weber, J and Caillard, JF}, title = {Citation classics in occupational medicine journals.}, booktitle = {28th Congress of the International Commission of Occupational Health}, address = {Milan, Italy}, month = {June}, year = {2006} }
3 Communication internationale Joubert, M; Peretti, AL; Darmoni, SJ; Dahamna, B & Fieschi,M. Contribution to an automated indexing of French-language health web sites.. AMIA Annu Symp Proc , Pages 409-413, 2006.
Abstract: OBJECTIVES: to improve the indexing of French-language health web sites by emphasizing the major terms that best describe them. MATERIAL AND METHODS: this study exploits both UMLS knowledge sources and results of previous research. It proposes a method for ranking MeSH terms taken from each record in order of relevance. The method is tested on a corpus of records taken from the French-language health gateway CISMeF. RESULTS: the results of the experiment are compared to those of a preliminary study performed on a corpus taken from MEDLINE. DISCUSSION: the ultimate objective of this work is to interface the developed tools with an automated MeSH term extractor in order to propose an automated indexing engine for French-language health web sites.
BibTeX: @article{Joubert2006, author = {Joubert, M and Peretti, AL and Darmoni, SJ and Dahamna, B and Fieschi,M}, title = {Contribution to an automated indexing of French-language health web sites.}, journal = {AMIA Annu Symp Proc}, year = {2006}, pages = {409--413}, url = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=1839524} }
3 Communication internationale Neveol, A; Zeng, K & Bodenreider, O. Besides precision & recall: exploring alternative approaches to evaluating an automatic indexing tool for MEDLINE.. AMIA Annu Symp Proc , Pages 589-593, 2006.
Abstract: OBJECTIVE: This paper explores alternative approaches for the evaluation of an automatic indexing tool for MEDLINE, complementing the traditional precision and recall method. MATERIALS AND METHODS: The performance of MTI, the Medical Text Indexer used at NLM to produce MeSH recommendations for biomedical journal articles is evaluated on a random set of MEDLINE citations. The evaluation examines semantic similarity at the term level (indexing terms). In addition, the documents retrieved by queries resulting from MTI index terms for a given document are compared to the PubMed related citations for this document. RESULTS: Semantic similarity scores between sets of index terms are higher than the corresponding Dice similarity scores. Overall, 75% of the original documents and 58% of the top ten related citations are retrieved by queries based on the automatic indexing. CONCLUSIONS: The alternative measures studied in this paper confirm previous findings and may be used to select particular documents from the test set for a more thorough analysis.
BibTeX: @article{Neveol2006a, author = {Neveol, A and Zeng, K and Bodenreider, O}, title = {Besides precision \& recall: exploring alternative approaches to evaluating an automatic indexing tool for MEDLINE.}, journal = {AMIA Annu Symp Proc}, year = {2006}, pages = {589--593}, url = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=1839480} }
3 Communication internationale Névéol, A; Pereira, S; Soualmia, L; Thirion, B & Darmoni, SJ. A method of cross-lingual consumer health information retrieval.. Stud Health Technol Inform , Volume 124, Pages 601-608, 2006.
Abstract: OBJECTIVES: This paper presents a method of cross-language information retrieval aiming to make medical information available to patients in French and English, regardless of the query language they wish to use. METHODS: We describe the two MeSH-related terminologies used in this work. We show that the French patient synonyms included in CISMeF can be automatically mapped to the English consumer-oriented health topics used in MEDLINEplus, via the MeSH thesaurus. The links between French and English patient terms thus inferred can subsequently be exploited to automatically translate patient queries. RESULTS: 129 MEDLINEplus topics have been mapped to 142 CISMeF patient synonyms. Contextual links for cross-language retrieval have been added to the patient dedicated French information Gateway CISMeF. Conclusion: we have presented an efficient method for cross-lingual patient information retrieval in French and English, which may also be applied to other language pairs, subject to the availability of patient terminologies and of the MeSH thesaurus in these languages.
BibTeX: @article{Neveol2006, author = {Névéol, A and Pereira, S and Soualmia, L and Thirion, B and Darmoni, SJ}, title = {A method of cross-lingual consumer health information retrieval.}, journal = {Stud Health Technol Inform}, year = {2006}, volume = {124}, pages = {601--608} }
3 Communication internationale Pereira, S; Névéol, A; Massari, P; Joubert, M & Darmoni, SJ. Construction of a semi-automated ICD-10 coding help system to optimize medical and economic coding.. Stud Health Technol Inform , Volume 124, Pages 845-850, 2006.
Abstract: INTRODUCTION: In order to measure the medical activity in hospitals, physicians are required to code manually information concerning a patient's stay using ICD-10. This requires trained staff and a lot of time. We propose to help speed up and facilitate the tedious task of coding patient information. METHODS: we show two methods. First, we propose an automated ICD-10-based coding help system using an automated MeSH-based indexing system and a mapping between MeSH and ICD-10 extracted from the UMLS metathesaurus. Secondly, we propose the use of drug prescriptions to complete the previous coding with the use of a mapping between a given prescription drug and the relevant ICD-10 codes (in compliance with the drug approval). RESULTS: the results of a preliminary experiment indicate that the precision of the indexing system is 40% and the recall is 30% when we compare to an economic rules-based coding and to a descriptive coding. Discussion: moreover, we show that the use of prescription coding is relevant as the recall reaches 68% when the Vidal tool is used. CONCLUSION: Then, it is very interesting to complete the coding obtained automatically by the indexing/mapping system by the coding obtained from the prescriptions.
BibTeX: @article{Pereira2006, author = {Pereira, S and Névéol, A and Massari, P and Joubert, M and Darmoni, SJ}, title = {Construction of a semi-automated ICD-10 coding help system to optimize medical and economic coding.}, journal = {Stud Health Technol Inform}, year = {2006}, volume = {124}, pages = {845--850} }
3 Communication internationale Prieur, E & Lecroq, T. On-line construction of suffix vectors and maximal repeats. Proceedings of the 11th Mons Days of Theoretical Computer Science, Rennes, France, Pages 311-322, 2006.
BibTeX: @inproceedings{Prieur2006, author = {Prieur, E and Lecroq, T}, title = {On-line construction of suffix vectors and maximal repeats}, booktitle = {Proceedings of the 11th Mons Days of Theoretical Computer Science}, address = {Rennes, France}, year = {2006}, pages = {311--322}, url = {http://www.irisa.fr/JM06/Papers/prieur.pdf} }
3 Communication internationale Prieur, E & Lecroq, T. From suffix trees to suffix vectors. International Journal on Foundations of Computer Science , Volume 17, Number 6, Pages 1385-1402, 2006.
BibTeX: @article{Prieur2006a, author = {Prieur, E and Lecroq, T}, title = {From suffix trees to suffix vectors}, journal = {International Journal on Foundations of Computer Science}, year = {2006}, volume = {17}, number = {6}, pages = {1385--1402}, url = {http://www.stringology.org/cgi-bin/getfile.cgi?t=pdf&c=-&y=2005&n=3} }
3 Communication internationale Sibert, L; Darmoni, SJ; Benichou J; Dahamna, B & Weber, J. Online clinical reasoning assessment with the Script Concordance test: Results of a French pilot study.. 12th International Ottawa Conference on Medical Education, NY, USA, May, 2006.
BibTeX: @inproceedings{Sibert2006b, author = {Sibert, L and Darmoni, SJ and Benichou J and Dahamna, B and Weber, J}, title = {Online clinical reasoning assessment with the Script Concordance test: Results of a French pilot study.}, booktitle = {12th International Ottawa Conference on Medical Education}, address = {NY, USA}, month = {May}, year = {2006} }
3 Communication internationale Soualmia, L; Dahamna, B; Thirion, B & Darmoni, SJ. Strategies for health information retrieval.. Stud Health Technol Inform , Volume 124, Pages 595-600, 2006.
Abstract: BACKGROUND: The amount of health data accessible on the Web is increasing and Internet has become a major source of health information. Many tools and search engines are available but medical information retrieval remains difficult for both the health professional and the patients. OBJECTIVE: In this paper we describe heuristics that aim at matching as much as possible queries with the content of the documents in the context of the CISMeF catalogue (Catalogue and Index of Health Resources in French) and its Doc'CISMeF search tool. The queries are represented by terms and the content of the documents is indexed by a terminology based on the MeSH thesaurus. RESULTS: Several operations are performed to match the terms of the terminology: natural language processing techniques on multi-words queries, phonemisation, spelling correction, plain text search with adjacency etc.. Each one is tested to evaluate its contribution in matching the terminology and the indexed documents. CONCLUSION: The implemented heuristics contribute significantly with good results in maximising as much as possible the recall of the Doc'CISMeF search tool.
BibTeX: @article{Soualmia2006, author = {Soualmia, L and Dahamna, B and Thirion, B and Darmoni, SJ}, title = {Strategies for health information retrieval.}, journal = {Stud Health Technol Inform}, year = {2006}, volume = {124}, pages = {595--600} }
4 Communication nationale BRUNESSAUX, S; DAHAMNA, B; GALLINARI, P; KASSEL, G; MESNARD, O; PÉCUCHET, JP & SZULMAN, S. RNTL Technolangue ATONANT. Aide à l'enrichissement semi-automatique d'ontologies. TALN (Traitement automatique des langues naturelles), Leuven, France, Avril, Presses universitaires de Louvain, 2006.
BibTeX: @inproceedings{Sylvie2006, author = {BRUNESSAUX, S and DAHAMNA, B and GALLINARI, P and KASSEL, G and MESNARD, O and PÉCUCHET, JP and SZULMAN, S}, title = {RNTL Technolangue ATONANT. Aide à l'enrichissement semi-automatique d'ontologies}, booktitle = {TALN (Traitement automatique des langues naturelles)}, address = {Leuven, France}, month = {Avril}, publisher = {Presses universitaires de Louvain}, year = {2006}, edition = {Piet Mertens and Cedrick FAIRON and Anne DISTER et Patrick Watrin (Eds)}, url = {http://www.technolangue.net/IMG/pdf/Atonant-Taln06.pdf} }
4 Communication nationale Gehanno, JF; Kerdelhué, G; Darmoni, SJ; Fantoni, S; Caillard, J & Frimat, P. Veille documentaire en santé au travail.. 29eme Congrès National de Médecine et Santé au Travail, Lyon, France, Mai, 2006.
BibTeX: @inproceedings{Gehanno2006a, author = {Gehanno, JF and Kerdelhué, G and Darmoni, SJ and Fantoni, S and Caillard, J and Frimat, P}, title = {Veille documentaire en santé au travail.}, booktitle = {29eme Congrès National de Médecine et Santé au Travail}, address = {Lyon, France}, month = {Mai}, year = {2006} }
5 Résumé Burgun, A; Darmoni, SJ; Le Duff, F & Wéber, J. Problem-based learning in medical informatics for undergraduate medical students: an experiment in two medical schools.. Int J Med Inform , May, Volume 75, Number 5, Pages 396-402, 2006.
Abstract: PURPOSE: The objective of this work was to assess problem-based learning (PBL) as a method for teaching information and communication technology in medical informatics (MI) courses. A study was conducted in the Schools of Medicine of Rennes and Rouen (France) with third-year medical students. METHODS: The "PBL-in-MI" sessions included a first tutorial group meeting, then personal work, followed by a second tutorial group meeting. A problem that simulated practice and was focused on information technology was discussed. In Rouen, the students were familiar with PBL, and they enrolled on a voluntary basis, while in Rennes, the students were first-ever participants in PBL courses, and the program was mandatory. One hundred and seventy-seven students participated in the PBL-in-MI sessions and were given a questionnaire in order to evaluate qualitatively the sessions. RESULTS AND DISCUSSION: The response rate was 92.1 The overall opinion of the students was good. 69.8% responded positively to the program. In Rouen, where the students participated in PBL-in-MI sessions on a voluntary basis, the students were significantly more enthusiastic about PBL-in-MI. Moreover, attitudes and opinions of students are plausibly related to differences in previous PBL skills. The fact that the naïve group had two tutors, one trained and one naïve as the students, has been investigated. Teacher naivety was an explanatory factor for the differences between Rennes and Rouen.
BibTeX: @article{Burgun2006, author = {Burgun, A and Darmoni, SJ and Le Duff, F and Wéber, J}, title = {Problem-based learning in medical informatics for undergraduate medical students: an experiment in two medical schools.}, month = {May}, journal = {Int J Med Inform}, year = {2006}, volume = {75}, number = {5}, pages = {396--402}, doi = {10.1016/j.ijmedinf.2005.07.014} }
5 Résumé Florea, F; Müller, H; Rogozan, A; Geissbuhler, A & Darmoni, SJ. Medical image categorization with MedIC and MedGIFT. Medical Informatics Europe (MIE2006), Maastricht, Netherlands, 27-30 August, Pages 3-11, 2006.
Abstract: Images play an important role in medical diagnostics and treatment planning. Whereas medical text retrieval, analysis, and reuse have been practiced for many years, much less is known on the storage and reuse of images in a context other than a single patient, although several medical teaching files with images exist. The aim of automatic image indexing/retrieval is to provide efficient and fast access to image collections to reuse stored information. When indexing medical images, the automatic categorization provides the means of extracting otherwise unavailable information about the images. Image categorization is usually applied in a context where a large number of images needs to be treated automatically and where no or only little text is available. This study will focus on a database extracted from online resources of the CISMeF health-catalogue. The aim is to assess the performance of two medical image categorization architectures in a complex environment (10322 images, 33 classes, multiple modalities, anatomical regions, and view-angles). The image database was extracted and annotated in collaboration with an experienced radiologist. The two compared systems have very different architectures. MedIC is an architecture based on machine learning applied to several sets of image texture and grey-level statistics. It achieves a maximum accuracy of 97.24% on 32 classes (representing different modalities, anatomical regions and view angles) and 98.47% on 6 classes (representing only the medical modality), when using an SVM classifier. MedGIFT on the other hand is a visual retrieval system where the visually most similar images are used to classify new images, currently without any learning strategy. This approach reaches an accuracy of 95.25% for the 32 classes and 97.15% for detecting the modality. By including a proper learning strategy these results can be expected to increase. The results show that image categorization has reached an accuracy that can be regarded as sufficient for many automatic image categorization tasks to get information on poorly annotated image collections.
BibTeX: @inproceedings{Florea2006b, author = {Florea, F and Müller, H and Rogozan, A and Geissbuhler, A and Darmoni, SJ}, title = {Medical image categorization with MedIC and MedGIFT}, booktitle = {Medical Informatics Europe (MIE2006)}, address = {Maastricht, Netherlands}, month = {27-30 August}, year = {2006}, pages = {3-11} }
2005 1 Publication internationale Duval, JP; Lecroq, T & Lefebvre, A. Border Array on Bounded Alphabet. Journal of Automata Language and Combinatorics , Volume 10, Number 1, Pages 51-60, 2005.
BibTeX: @article{Duval2005, author = {Duval, JP and Lecroq, T and Lefebvre, A}, title = {Border Array on Bounded Alphabet}, journal = {Journal of Automata Language and Combinatorics}, year = {2005}, volume = {10}, number = {1}, pages = {51--60} }
1 Publication internationale Gehanno, JF; Darmoni, SJ & Caillard, JF. Major inaccuracies in articles citing occupational or environmental medicine papers and their implications.. J Med Libr Assoc , Jan, Volume 93, Number 1, Pages 118-121, 2005.
BibTeX: @article{Gehanno2005, author = {Gehanno, JF and Darmoni, SJ and Caillard, JF}, title = {Major inaccuracies in articles citing occupational or environmental medicine papers and their implications.}, month = {Jan}, journal = {J Med Libr Assoc}, year = {2005}, volume = {93}, number = {1}, pages = {118--121}, url = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=545131} }
1 Publication internationale Pelfrêne, J; Abdeddaïm, S & Alexandre, J. Extracting approximate patterns. Journal on Discrete Algorithms , Volume 3, Number 2--4, Pages 293-320, 2005.
BibTeX: @article{Pelfrene2005, author = {Pelfrêne, J and Abdeddaïm, S and Alexandre, J}, title = {Extracting approximate patterns}, journal = {Journal on Discrete Algorithms}, year = {2005}, volume = {3}, number = {2--4}, pages = {293--320}, doi = {10.1016/j.jda.2004.08.010} }
1 Publication internationale Sibert, L; Darmoni, SJ; Dahamna, B; Weber, J & Charlin, B. Online clinical reasoning assessment with the Script Concordance test: a feasibility study.. BMC Med Inform Decis Mak , Volume 5, Pages 18, 2005.
Abstract: BACKGROUND: The script concordance (SC) test is an assessment tool that measures capacity to solve ill-defined problems, that is, reasoning in context of uncertainty. This tool has been used up to now mainly in medicine. The purpose of this pilot study is to assess the feasibility of the test delivered on the Web to French urologists. METHODS: The principle of SC test construction and the development of the Web site are described. A secure Web site was created with two sequential modules: (a) The first one for the reference panel (n = 26) with two sub-tasks: to validate the content of the test and to elaborate the scoring system; (b) The second for candidates with different levels of experience in Urology: Board certified urologists, residents, medical students (5 or 6th year). Minimum expected number of participants is 150 for urologists, 100 for residents and 50 for medical students. Each candidate is provided with an individual access code to this Web site. He/she may complete the Script Concordance test several times during his/her curriculum. RESULTS: The Web site has been operational since April 2004. The reference panel validated the test in June of the same year during the annual seminar of the French Society of Urology. The Web site is available for the candidates since September 2004. In six months, 80% of the target figure for the urologists, 68% of the target figure for the residents and 20% of the target figure for the student passed the test online. During these six months, no technical problem was encountered. CONCLUSION: The feasibility of the web-based SC test is successful as two-thirds of the expected number of participants was included within six months. Psychometric properties (validity, reliability) of the test will be evaluated on a large scale (N = 300). If positive, educational impact of this assessment tool will be useful to help urologists during their curriculum for the acquisition of clinical reasoning skills, which is crucial for professional competence.
BibTeX: @article{Sibert2005, author = {Sibert, L and Darmoni, SJ and Dahamna, B and Weber, J and Charlin, B}, title = {Online clinical reasoning assessment with the Script Concordance test: a feasibility study.}, journal = {BMC Med Inform Decis Mak}, year = {2005}, volume = {5}, pages = {18}, doi = {10.1186/1472-6947-5-18} }
1 Publication internationale Soualmia, L & Darmoni, SJ. Combining different standards and different approaches for health information retrieval in a quality-controlled gateway.. Int J Med Inform , Mar, Volume 74, Number 2-4, Pages 141-150, 2005.
Abstract: Internet as source of information is increasing in preeminence in numerous fields, including health. We describe in this paper the CISMeF project (acronym of Catalogue and Index of French-speaking Medical Sites) which has been designed to help the health information consumers and health professionals to find what they are looking for among the numerous health documents available online. The catalogue is founded on two standards: a set of metadata and a terminology based on the MeSH thesaurus which has the same structure and use as an ontology of the medical domain. The structure of the catalogue allows us to place the project at an overlap between the present Web, which is informal, and the forthcoming Semantic Web. Many features of information retrieval and navigation through the catalogue were developed. These features take into account the kind of the end-user (health professional, medical student, patient). The CISMeF-patients catalogue is a sub-catalogue of CISMeF and is dedicated to the patients and the general public. It shares the same model as CISMeF whereas MEDLINE and MedlinePlus do not. We also propose to couple two approaches (morphological processing and data mining) to help the users by correcting and refining their queries.
BibTeX: @article{Soualmia2005, author = {Soualmia, L and Darmoni, SJ}, title = {Combining different standards and different approaches for health information retrieval in a quality-controlled gateway.}, month = {Mar}, journal = {Int J Med Inform}, year = {2005}, volume = {74}, number = {2-4}, pages = {141--150}, doi = {10.1016/j.ijmedinf.2004.05.012} }
1 Publication internationale Zweigenbaum, P; Baud, R; Burgun, A; Namer, F; Jarrousse, E; Grabar, N; Ruch, P; Le Duff, F; Forget, JF; Douyère, M & Darmoni, SJ. UMLF: a unified medical lexicon for French.. Int J Med Inform , Mar, Volume 74, Number 2-4, Pages 119-124, 2005.
Abstract: Medical Informatics has a constant need for basic medical language processing tasks, e.g. for coding into controlled vocabularies, free text indexing and information retrieval. Most of these tasks involve term matching and rely on lexical resources: lists of words with attached information, including inflected forms and derived words, etc. Such resources are publicly available for the English language with the UMLS Specialist Lexicon, but not in other languages. For the French language, several teams have worked on the subject and built local lexical resources. The goal of the present work is to pool and unify these resources and to add extensively to them by exploiting medical terminologies and corpora, resulting in a unified medical lexicon for French (UMLF). This paper exposes the issues raised by such an objective, describes the methods on which the project relies and illustrates them with experimental results.
BibTeX: @article{Zweigenbaum2005, author = {Zweigenbaum, P and Baud, R and Burgun, A and Namer, F and Jarrousse, E and Grabar, N and Ruch, P and Le Duff, F and Forget, JF and Douyère, M and Darmoni, SJ}, title = {UMLF: a unified medical lexicon for French.}, month = {Mar}, journal = {Int J Med Inform}, year = {2005}, volume = {74}, number = {2-4}, pages = {119--124}, doi = {10.1016/j.ijmedinf.2004.03.010} }
2 Publication nationale Névéol, A. Automatisation des tâches documentaires dans un catalogue de santé en ligne. School: INSA de Rouen, 2005.
BibTeX: @phdthesis{Neveol2005e, author = {Névéol, A}, title = {Automatisation des tâches documentaires dans un catalogue de santé en ligne}, school = {INSA de Rouen}, year = {2005}, url = {http://aurelie.neveol.free.fr/theseAN.pdf} }
2 Publication nationale Thirion, B & Bonmarchand, G. Comment trouver ou retrouver les recommandations de bonne pratique en langue francaise ou anglaise ?. Reanimation , September, Volume 14, Pages 411-415, 2005.
BibTeX: @article{Thirion2005, author = {Thirion, B and Bonmarchand, G}, title = {Comment trouver ou retrouver les recommandations de bonne pratique en langue francaise ou anglaise ?}, month = {September}, journal = {Reanimation}, year = {2005}, volume = {14}, pages = {411-415}, doi = {10.1016/j.reaurg.2005.07.001} }
3 Communication internationale Florea, F; Vertan, C; Rogozan, A; Bensrhair, A & Darmoni, SJ. Comparison of histogram-based feature sets for medical image modality categorization. Proc. International Symposium on Signals, Circuits and Systems ISSCS 2005, Iasi, Romania, 14-15 July, Volume 1, Pages 47-50 Vol. 1, 2005.
BibTeX: @inproceedings{Florea2005, author = {Florea, F and Vertan, C and Rogozan, A and Bensrhair, A and Darmoni, SJ}, title = {Comparison of histogram-based feature sets for medical image modality categorization}, booktitle = {Proc. International Symposium on Signals, Circuits and Systems ISSCS 2005}, address = {Iasi, Romania}, month = {14-15 July}, year = {2005}, volume = {1}, pages = {47--50 Vol. 1}, doi = {10.1109/ISSCS.2005.1509847} }
3 Communication internationale Gehanno, JF. Evidence Based Medicine in occupational health. Why and how to find relevant information on health screening and health surveillance in scientific literature.. CME: Health, Work & Environment, Inter-University Centre. Dubrovnik, Croatia, September, 2005.
BibTeX: @inproceedings{Gehanno2005b, author = {Gehanno, JF}, title = {Evidence Based Medicine in occupational health. Why and how to find relevant information on health screening and health surveillance in scientific literature.}, booktitle = {CME: Health, Work \& Environment}, address = {Inter-University Centre. Dubrovnik, Croatia}, month = {September}, year = {2005} }
3 Communication internationale Groult, R; Léonard, M & Mouchard, L. A Linear Algorithm for the Detection of Evolutive Tandem Repeats. Journal of Automata, Languages and Combinatorics , Volume 10, Number 5/6, Pages 671-685, 2005.
BibTeX: @article{Groult2005, author = {Groult, R and Léonard, M and Mouchard, L}, title = {A Linear Algorithm for the Detection of Evolutive Tandem Repeats}, journal = {Journal of Automata, Languages and Combinatorics}, year = {2005}, volume = {10}, number = {5/6}, pages = {671-685} }
3 Communication internationale Letellier, S; Leuraud, K; Arnaud, P & Darmoni, SJ. Usability study on two handheld computers to retrieve drug information.. Stud Health Technol Inform , Volume 116, Pages 322-327, 2005.
Abstract: Objective :Performing a usability study on two handheld computers (personal digital assistant and tablet PC), as tools for retrieving drug information.Materials and methods: A randomised crossover study was performed: 34 students in pharmacy and medicine used the two handheld tools in a randomised order, to answer a questionnaire containing 12 questions covering all the aspects of a drug database and a qualitative analysis on six different items to measure access to drug information. The availability of the drug information database Vidal on PDA and on tablet PC implied our choice of the database. Three main criteria for evaluation were chosen: success rates, time-on-task, and number of clicks.Results: There were no significant differences between the two groups neither on age, sex, medical discipline, study years nor previous computer practice. The success rate is significantly higher with the PDA for only one question. The PDA is significantly faster than the tablet PC on 7 of the 12 questions and generates fewer clicks for 3 questions. Compared to the tablet PC, it appears that the PDA is better in terms of clearness, navigability and usefulness for professional practice and it is the only tool which is significantly preferred to all other supports.Conclusion: In this study with students, the PDA is significantly more effective quantitatively and qualitatively than the tablet PC to retrieve drug information.
BibTeX: @article{Letellier2005, author = {Letellier, S and Leuraud, K and Arnaud, P and Darmoni, SJ}, title = {Usability study on two handheld computers to retrieve drug information.}, journal = {Stud Health Technol Inform}, year = {2005}, volume = {116}, pages = {322--327}, url = {http://www.magic5.unile.it/PapDoc/Article/MIE2005/TOC%20Scientific%20Contributions/Handheld%20and%20Wireless%20Computing/290.pdf} }
3 Communication internationale Névéol, A; Mary, V; Gaudinat, A; Rogozan, A & Darmoni, SJ. A Benchmark Evaluation of the French MeSH Indexing Systems. 10th Conference on Artificial Intelligence in Medicine, 2005.
BibTeX: @inproceedings{Neveol2005d, author = {Névéol, A and Mary, V and Gaudinat, A and Rogozan, A and Darmoni, SJ}, title = {A Benchmark Evaluation of the French MeSH Indexing Systems}, booktitle = {10th Conference on Artificial Intelligence in Medicine}, year = {2005}, url = {http://www.chu-rouen.fr/l@stics/NeveolAIME05long.pdf} }
3 Communication internationale Névéol, A; Mork, J; Aronson, AR & Darmoni, SJ. Evaluation of French and English MeSH indexing systems with a parallel corpus.. AMIA Annu Symp Proc , Pages 565-569, 2005.
Abstract: OBJECTIVE: This paper presents the evaluation of two MeSH indexing systems for French and English on a parallel corpus. MATERIAL AND METHODS: We describe two automatic MeSH in-dexing systems - MTI for English, and MAIF for French. The French version of the evaluation resources has been manually indexed with MeSH keyword/qualifier pairs. This professional indexing is used as our gold standard in the evaluation of both systems on keyword retrieval. RESULTS: The English system (MTI) obtains significantly better precision and recall (78% precision and 21% recall at rank 1, vs. 37 precision and 6% recall for MAIF ). Moreover, the performance of both systems can be optimised by the break-age function used by the French system (MAIF), which selects an adaptive number of descriptors for each resource indexed. CONCLUSION: MTI achieves better performance. However, both systems have features that can benefit each other.
BibTeX: @article{Neveol2005, author = {Névéol, A and Mork, J and Aronson, AR and Darmoni, SJ}, title = {Evaluation of French and English MeSH indexing systems with a parallel corpus.}, journal = {AMIA Annu Symp Proc}, year = {2005}, pages = {565--569}, url = {http://www.chu-rouen.fr/l@stics/NeveolAMIA2005.pdf} }
3 Communication internationale Prieur, E & Lecroq, T. From suffix trees to suffix vectors. Proceedings of the Prague Stringology Conference (PSC 2005), Prague, Czech Republic, Pages 37-53, 2005.
BibTeX: @inproceedings{Prieur2005a, author = {Prieur, E and Lecroq, T}, title = {From suffix trees to suffix vectors}, booktitle = {Proceedings of the Prague Stringology Conference (PSC 2005)}, address = {Prague, Czech Republic}, year = {2005}, pages = {37--53} }
3 Communication internationale Renard, JM; Brunetaud, JM; Cuggia, M; Darmoni, SJ; Lebeux, P & Beuscart, R. An Improved Publication Process for the UMVF.. Stud Health Technol Inform , Volume 116, Pages 279-283, 2005.
Abstract: The "Université Médicale Virtuelle Francophone" (UMVF) is a federation of French medical schools. Its main goal is to share the production and use of pedagogic medical resources generated by academic medical teachers. We developed an Open-Source application based upon a workflow system which provides an improved publication process for the UMVF. For teachers, the tool permits easy and efficient upload of new educational resources. For web masters it provides a mechanism to easily locate and validate the resources. For both the teachers and the web masters, the utility provides the control and communication functions that define a workflow system.For all users, students in particular, the application improves the value of the UMVF repository by providing an easy way to find a detailed description of a resource and to check any resource from the UMVF to ascertain its quality and integrity, even if the resource is an old deprecated version. The server tier of the application is used to implement the main workflow functionalities and is deployed on certified UMVF servers using the PHP language, an LDAP directory and an SQL database. The client tier of the application provides both the workflow and the search and check functionalities and is implemented using a Java applet through a W3C compliant web browser. A unique signature for each resource, was needed to provide security functionality and is implemented using the MD5 Digest algorithm. The testing performed by Rennes and Lille verified the functionality and conformity with our specifications.
BibTeX: @article{Renard2005, author = {Renard, JM and Brunetaud, JM and Cuggia, M and Darmoni, SJ and Lebeux, P and Beuscart, R}, title = {An Improved Publication Process for the UMVF.}, journal = {Stud Health Technol Inform}, year = {2005}, volume = {116}, pages = {279--283} }
4 Communication nationale Darmoni, SJ. Les sites Internet éducatifs et de prévention. Le patient au c?ur du système d?information de santé. Congrès du Graph, Marseille, France, Janvier, 2005.
BibTeX: @inproceedings{Darmoni2005, author = {Darmoni, SJ}, title = {Les sites Internet éducatifs et de prévention}, booktitle = {Le patient au c?ur du système d?information de santé. Congrès du Graph}, address = {Marseille, France}, month = {Janvier}, year = {2005}, url = {http://gestions-hospitalieres.fr/article.php?ref_article=2386} }
4 Communication nationale Florea, F; Rogozan, A; Bensrhair, A & Darmoni, SJ. Medical image retrieval by content and keyword in an on-line health-catalogue context. Computer Vision/Computer Graphics Collaboration Techniques and Applications (Mirage2005), INRIA Rocquencourt, France, Pages 229-236, 2005.
BibTeX: @inproceedings{Florea2005c, author = {Florea, F and Rogozan, A and Bensrhair, A and Darmoni, SJ}, title = {Medical image retrieval by content and keyword in an on-line health-catalogue context}, booktitle = {Computer Vision/Computer Graphics Collaboration Techniques and Applications (Mirage2005)}, address = {INRIA Rocquencourt, France}, year = {2005}, pages = {229-236} }
4 Communication nationale Florea, F; Rogozan, A; Bensrhair, A; Dacher J-N & Darmoni, SJ. Recherche des images médicales par contenu et type de ressource dans un catalogue de santé en ligne. JFIM Journées Francophones d'Informatique Médicale, Lille, France, 12-13 mai, 1-7, 2005.
BibTeX: @inproceedings{Florea2005b, author = {Florea, F and Rogozan, A and Bensrhair, A and Dacher J-N and Darmoni, SJ}, title = {Recherche des images médicales par contenu et type de ressource dans un catalogue de santé en ligne}, booktitle = {JFIM Journées Francophones d'Informatique Médicale}, address = {Lille, France}, month = {12-13 mai}, year = {2005}, series = {1-7}, url = {http://litismail.insa-rouen.fr/MnemosNet/psipubli.nsf/ce6c2c540f564a2dc125680200361b7c/96a6886bc83ef1fbc1256fd30030933d/$FILE/11-Florea-Jfim05.pdf} }
4 Communication nationale Gehanno, JF; Thirion, B; Darmoni, SJ & Caillard JF. La recherche documentaire sur le risque cancérogène par le médecin du travail.. Journées Nationales de Santé au Travail dans le BTP, Volume 28, Pages 51-53, 2005.
BibTeX: @inproceedings{Gehanno2005a, author = {Gehanno, JF and Thirion, B and Darmoni, SJ and Caillard JF}, title = {La recherche documentaire sur le risque cancérogène par le médecin du travail.}, booktitle = {Journées Nationales de Santé au Travail dans le BTP}, year = {2005}, volume = {28}, pages = {51-53}, url = {http://www.gnmbtp.org/references_documentaires/congres_2005/9.rechdocu-gehanno.pdf} }
4 Communication nationale Ladner, J; Roussel, F; Audureau, E; Girault, C; Menard, JF; Sibert, L & Darmoni, SJ. Evolution de l'utilisation d'Internet par les étudiants en médecine lors des enseignements par APP.. JFIM, 2005.
BibTeX: @inproceedings{Ladner2005, author = {Ladner, J and Roussel, F and Audureau, E and Girault, C and Menard, JF and Sibert, L and Darmoni, SJ}, title = {Evolution de l'utilisation d'Internet par les étudiants en médecine lors des enseignements par APP.}, booktitle = {JFIM}, year = {2005}, url = {http://www.univ-lille2.fr/jfim2005/papiers/48-ladner-jfim2005.pdf} }
4 Communication nationale Letellier, S; Leuraud, K & Darmoni, SJ. Etude d'utilisabilité de deux outils nomades pour accéder à une base de connaissances sur le médicament.. JFIM, 2005.
BibTeX: @inproceedings{Letellier2005a, author = {Letellier, S and Leuraud, K and Darmoni, SJ}, title = {Etude d'utilisabilité de deux outils nomades pour accéder à une base de connaissances sur le médicament.}, booktitle = {JFIM}, year = {2005}, url = {http://www.univ-lille2.fr/jfim2005/papiers/04-Letellier-JFIM2005.pdf} }
4 Communication nationale LOISEL, A; KOTOWICZ, JP; CHAIGNAUD, N & DARMONI, SJ. Un système de dialogue homme-machine pour un moteur de recherche de documents médicaux (Poster). 7ème Conférence Francophone sur l'interaction Homme-Machine, IHM'05,, Toulouse, France, septembre, Pages 31-34, 2005.
Abstract: Le projet Cogni-CISMeF vise à construire un système de dialogue Homme-Machine (DHM) en langue naturelle afin d?améliorer l?interface qui permet d?accéder à un annuaire de recherche de ressources médicales sur le Web (CISMeF). L?amorce de ce système peut s?envisager selon deux approches : ? l?analyse de dialogues recueillis entre un expert hu-main de la technologie CISMeF et des utilisateurs ; ? l?analyse de dialogues entre des utilisateurs et un système minimal de dialogue homme-machine, im-plémenté directement sur l?internet et qui évoluera progressivement. Nous réfléchissons à une modélisation informatique de la théorie de la pertinence issue des recherches en pragma-tique cognitive.
BibTeX: @inproceedings{LOISEL2005, author = {LOISEL, A and KOTOWICZ, JP and CHAIGNAUD, N and DARMONI, SJ}, title = {Un système de dialogue homme-machine pour un moteur de recherche de documents médicaux (Poster)}, booktitle = {7ème Conférence Francophone sur l'interaction Homme-Machine, IHM'05,}, address = {Toulouse, France}, month = {septembre}, year = {2005}, pages = {31-34} }
4 Communication nationale LOISEL, A; KOTOWICZ, JP; CHAIGNAUD, N & DARMONI, SJ. Un système de dialogue homme-machine pour un moteur de recherche de documents médicaux (Poster). 2èmes rencontres des Sciences et Technologies de l'Information, Clermont Ferrand, France, octobre, Pages 31-34, 2005.
Abstract: Le projet Cogni-CISMeF vise à construire un système de dialogue Homme-Machine (DHM) en langue naturelle afin d?améliorer l?interface qui permet d?accéder à un annuaire de recherche de ressources médicales sur le Web (CISMeF). L?amorce de ce système peut s?envisager selon deux approches : ? l?analyse de dialogues recueillis entre un expert hu-main de la technologie CISMeF et des utilisateurs ; ? l?analyse de dialogues entre des utilisateurs et un système minimal de dialogue homme-machine, im-plémenté directement sur l?internet et qui évoluera progressivement. Nous réfléchissons à une modélisation informatique de la théorie de la pertinence issue des recherches en pragma-tique cognitive.
BibTeX: @inproceedings{LOISEL2005a, author = {LOISEL, A and KOTOWICZ, JP and CHAIGNAUD, N and DARMONI, SJ}, title = {Un système de dialogue homme-machine pour un moteur de recherche de documents médicaux (Poster)}, booktitle = {2èmes rencontres des Sciences et Technologies de l'Information}, address = {Clermont Ferrand, France}, month = {octobre}, year = {2005}, pages = {31-34} }
4 Communication nationale Neveol, A; Florea, F; Thirion, B & Darmoni, SJ. Formalisation de règles d'indexation MeSH pour un usage automatique. Journées INTEX/NOOJ, Besançon, France, 30 May - 1 June, 2005.
BibTeX: @inproceedings{Neveol2005a, author = {Neveol, A and Florea, F and Thirion, B and Darmoni, SJ}, title = {Formalisation de règles d'indexation MeSH pour un usage automatique}, booktitle = {Journées INTEX/NOOJ}, address = {Besançon, France}, month = {30 May - 1 June}, year = {2005}, url = {http://laseldi.univ-fcomte.fr/document/colloque/nooj_2005/022NEVEOL.htm} }
4 Communication nationale Névéol, A & Ozdowska, S. Extraction de termes médicaux à partir d'un corpus parallèle anglais/français. Extraction et Gestion des Connaissances, Paris, France, Janvier, Pages 655-664, 2005.
BibTeX: @inproceedings{Neveol2005c, author = {Névéol, A and Ozdowska, S}, title = {Extraction de termes médicaux à partir d'un corpus parallèle anglais/français}, booktitle = {Extraction et Gestion des Connaissances}, address = {Paris, France}, month = {Janvier}, year = {2005}, pages = {655-664}, url = {http://w3.univ-tlse2.fr/erss/textes/pagespersos/ozdowska/publis/neveol-ozdowska-egc05.pdf} }
4 Communication nationale Névéol, A; Rogozan, A & Darmoni, SJ. Indexation automatique de ressources de santé à l'aide de paires de descripteurs MeSH.. TALN, Dourdan, France, Juin, Volume 1, Pages 475-480, 2005.
BibTeX: @inproceedings{Neveol2005b, author = {Névéol, A and Rogozan, A and Darmoni, SJ}, title = {Indexation automatique de ressources de santé à l'aide de paires de descripteurs MeSH.}, booktitle = {TALN}, address = {Dourdan, France}, month = {Juin}, year = {2005}, volume = {1}, pages = {475-480}, url = {http://taln.limsi.fr/site/talnRecital05/tome1/P54.pdf} }
4 Communication nationale Ozdowska, S; Névéol A & Thirion, B. Traduction compositionnelle automatique de bitermes dans des corpus anglais/français alignés.. 6èmes rencontres Terminologie et Intelligence Artificielle, Pages 83-94, 2005.
BibTeX: @inproceedings{Ozdowska2005, author = {Ozdowska, S and Névéol A and Thirion, B}, title = {Traduction compositionnelle automatique de bitermes dans des corpus anglais/français alignés.}, booktitle = {6èmes rencontres Terminologie et Intelligence Artificielle}, year = {2005}, pages = {83-94}, url = {http://www.loria.fr/%7Eyannick/TIA2005/doc/ozdowska.pdf} }
4 Communication nationale Pereira, S; Névéol, A; Massari, P & Darmoni, SJ. Evaluation de plusieurs terminologies médicales pour optimiser l'aide au codage médico-économique par analyse automatique de dossiers électroniques de patient. Congrès ASTI, Clermont Ferrand, France, Octobre, 2005.
BibTeX: @inproceedings{Pereira2005, author = {Pereira, S and Névéol, A and Massari, P and Darmoni, SJ}, title = {Evaluation de plusieurs terminologies médicales pour optimiser l'aide au codage médico-économique par analyse automatique de dossiers électroniques de patient}, booktitle = {Congrès ASTI}, address = {Clermont Ferrand, France}, month = {Octobre}, year = {2005} }
4 Communication nationale É. Prieur & T. Lecroq. Des arbres de suffixes aux vecteurs de suffixes. , 2005.
BibTeX: @misc{Prieur2005, author = {{\'E}. Prieur and T. Lecroq}, title = {Des arbres de suffixes aux vecteurs de suffixes}, year = {2005} }
5 Résumé Florea, F; Rogozan, A; Bensrhair, A; Dacher, J-N & Darmoni, S. Modality categorisation by textual annotations interpretation in medical imaging. Connecting Medical Informatics and Bio-Informatics, Medical Informatics Europe (MIE2005), October, Pages 1270-1275, 2005.
Abstract: Our work is concerned with the automatic indexing of medical images for image retrieval purposes inside a large on-line health-catalogue. We present, in this paper, a rule-based medical-image modality categorization approach. The modality information is important for the indexing of medical images present in on-line health documents (thus, mainly in JPEG format). In fact, contrary to the case of the DICOM images, extensively used in PACS systems, JPEG images have any attached metadata (like those present in DICOM headers). Our system is based on the automatic interpretation of textual annotations, once they are extracted from the medical image by image processing and optical character recognition techniques. The system performances were tested on a medical image database, containing six medical modalities: angiography, ultrasonography, magnetic resonance imaging, standard radiography, computer tomography, and scintigraphy. The extraction of this database from a live health environment ensures the diversity of content from the modality, anatomical region and pathological point of view. In order to determinate the medical image modality, the textual annotations have been interpreted using a set of 96 production rules defined by our expert radiologist. The high precision rate of our categorization system (~90%), proves that textual annotations present in medical images are very reliable indicators of the medical modality. Further work will concern the fusion of our rule-based system with an already implemented visual-content based system, for a robust image modality categorization.
BibTeX: @inproceedings{Florea2005d, author = {Florea, F and Rogozan, A and Bensrhair, A and Dacher, J-N and Darmoni, S}, title = {Modality categorisation by textual annotations interpretation in medical imaging}, booktitle = {Connecting Medical Informatics and Bio-Informatics, Medical Informatics Europe (MIE2005)}, month = {October}, year = {2005}, pages = {1270-1275} }
2004 1 Publication internationale Al-Qsous, S; Carpentier, E; Klein-Eude, D; Burel, C; Mareck, A; Dauchel, H; Gomord, V & A.P. Balangé. Identification and isolation of a pectin methylesterase isoform that could be involved in flax cell wall stiffening. Planta , Volume 219, Number 2, Pages 369-378., 2004.
BibTeX: @article{Al-Qsous2004, author = {Al-Qsous, S and Carpentier, E and Klein-Eude, D and Burel, C and Mareck, A and Dauchel, H and Gomord, V and A.P. Balangé}, title = {Identification and isolation of a pectin methylesterase isoform that could be involved in flax cell wall stiffening}, journal = {Planta}, year = {2004}, volume = {219}, number = {2}, pages = {369--378.}, doi = {10.1007/s00425-004-1246-1} }
1 Publication internationale Charras, C & Lecroq, T. Handbook of exact string matching algorithms. , King's College London Publications, 2004.
BibTeX: @book{Charras2004, author = {Charras, C and Lecroq, T}, title = {Handbook of exact string matching algorithms}, publisher = {King's College London Publications}, year = {2004} }
1 Publication internationale Coulouarn, C; Lefebvre, G; Derambure, C; Lequerre, T; Scotte, M; Francois, A; Cellier, D; Daveau, M & Salier, JM. Altered gene expression in acute systemic inflammation detected by complete coverage of the human liver transcriptome. Hepatology , Volume 39, Number 2, Pages 353-364, 2004.
BibTeX: @article{Coulouarn2004, author = {Coulouarn, C and Lefebvre, G and Derambure, C and Lequerre, T and Scotte, M and Francois, A and Cellier, D and Daveau, M and Salier, JM}, title = {Altered gene expression in acute systemic inflammation detected by complete coverage of the human liver transcriptome}, journal = {Hepatology}, year = {2004}, volume = {39}, number = {2}, pages = {353--364}, doi = {10.1002/hep.20052} }
1 Publication internationale Crochemore, M & Lecroq, T. 13 in : Pattern matching and text data compression algorithms. The Computer Science and Engineering Handbook, Boca Raton, FL, Pages 13-1-13-48, CRC Press Inc., 2004.
BibTeX: @incollection{Crochemore2004, author = {Crochemore, M and Lecroq, T}, title = {Pattern matching and text data compression algorithms}, booktitle = {The Computer Science and Engineering Handbook}, address = {Boca Raton, FL}, publisher = {CRC Press Inc.}, year = {2004}, pages = {13-1--13-48}, edition = {2nd} }
1 Publication internationale Darmoni, SJ; Dahamna, B & Roth-Berghofer, T. Seal of transparency heritage in the CISMeF quality-controlled health gateway.. BMC Med Inform Decis Mak , Sep, Volume 4, Pages 15, 2004.
Abstract: BACKGROUND: It is an absolute necessity to continually assess the quality of health information on the Internet. Quality-controlled subject gateways are Internet services which apply a selected set of targeted measures to support systematic resource discovery. METHODS: The CISMeF health gateway became a contributor to the MedCIRCLE project to evaluate 270 health information providers. The transparency heritage consists of using the evaluation performed on providers that are referenced in the CISMeF catalogue for evaluating the documents they publish, thus passing on the transparency label from the publishers to their documents. RESULTS: Each site rated in CISMeF has a record in the CISMeF database that generates an RDF into HTML file. The search tool Doc'CISMeF displays information originating from every publisher evaluated with a specific MedCIRCLE button, which is linked to the MedCIRCLE central repository. Starting with 270 websites, this trust heritage has led to 6,480 evaluated resources in CISMeF (49.8% of the 13,012 resources included in CISMeF). CONCLUSION: With the MedCIRCLE project and transparency heritage, CISMeF became an explicit third party.
BibTeX: @article{Darmoni2004, author = {Darmoni, SJ and Dahamna, B and Roth-Berghofer, T}, title = {Seal of transparency heritage in the CISMeF quality-controlled health gateway.}, month = {Sep}, journal = {BMC Med Inform Decis Mak}, year = {2004}, volume = {4}, pages = {15}, doi = {10.1186/1472-6947-4-15} }
1 Publication internationale Douyère, M; Soualmia, L; Névéol, A; Rogozan, A; Dahamna, B; Leroy, JP; Thirion, B & Darmoni, SJ. Enhancing the MeSH thesaurus to retrieve French online health resources in a quality-controlled gateway.. Health Info Libr J , Dec, Volume 21, Number 4, Pages 253-261, 2004.
Abstract: The amount of health information available on the Internet is considerable. In this context, several health gateways have been developed. Among them, CISMeF (Catalogue and Index of Health Resources in French) was designed to catalogue and index health resources in French. The goal of this article is to describe the various enhancements to the MeSH thesaurus developed by the CISMeF team to adapt this terminology to the broader field of health Internet resources instead of scientific articles for the medline bibliographic database. CISMeF uses two standard tools for organizing information: the MeSH thesaurus and several metadata element sets, in particular the Dublin Core metadata format. The heterogeneity of Internet health resources led the CISMeF team to enhance the MeSH thesaurus with the introduction of two new concepts, respectively, resource types and metaterms. CISMeF resource types are a generalization of the publication types of medline. A resource type describes the nature of the resource and MeSH keyword/qualifier pairs describe the subject of the resource. A metaterm is generally a medical specialty or a biological science, which has semantic links with one or more MeSH keywords, qualifiers and resource types. The CISMeF terminology is exploited for several tasks: resource indexing performed manually, resource categorization performed automatically, visualization and navigation through the concept hierarchies and information retrieval using the Doc'CISMeF search engine. The CISMeF health gateway uses several MeSH thesaurus enhancements to optimize information retrieval, hierarchy navigation and automatic indexing.
BibTeX: @article{Douyere2004, author = {Douyère, M and Soualmia, L and Névéol, A and Rogozan, A and Dahamna, B and Leroy, JP and Thirion, B and Darmoni, SJ}, title = {Enhancing the MeSH thesaurus to retrieve French online health resources in a quality-controlled gateway.}, month = {Dec}, journal = {Health Info Libr J}, year = {2004}, volume = {21}, number = {4}, pages = {253--261}, doi = {10.1111/j.1471-1842.2004.00526.x} }
1 Publication internationale Duval, JP; Kolpakov, R; Kucherov, G; Lecroq, T & Lefebvre, A. Linear-Time Computation of Local Periods. Theoretical Computer Science , Volume 326, Number 1--3, Pages 229-240, 2004.
BibTeX: @article{Duval2004, author = {Duval, JP and Kolpakov, R and Kucherov, G and Lecroq, T and Lefebvre, A}, title = {Linear-Time Computation of Local Periods}, journal = {Theoretical Computer Science}, year = {2004}, volume = {326}, number = {1--3}, pages = {229--240}, doi = {10.1016/j.tcs.2004.06.024} }
1 Publication internationale Groult, R; Léonard, M & Mouchard, L. Speeding up the detection of evolutive tandem repeats. Theoretical Computer Science , Volume 310, Number 1--3, Pages 309-328, 2004.
BibTeX: @article{Groult2004, author = {Groult, R and Léonard, M and Mouchard, L}, title = {Speeding up the detection of evolutive tandem repeats}, journal = {Theoretical Computer Science}, year = {2004}, volume = {310}, number = {1--3}, pages = {309--328}, doi = {10.1016/S0304-3975(03)00423-7} }
1 Publication internationale Groult, R; Léonard, M & Mouchard, L. Evolutive tandem repeats: a survey. String algorithmics, Pages 75-107, King's College London Publications, 2004.
BibTeX: @incollection{Groult2004a, author = {Groult, R and Léonard, M and Mouchard, L}, title = {Evolutive tandem repeats: a survey}, booktitle = {String algorithmics}, publisher = {King's College London Publications}, year = {2004}, pages = {75--107} }
1 Publication internationale Iliopoulos, CS & Lecroq, T. String algorithmics. , King's College London Publications, 2004.
BibTeX: @book{Iliopoulos2004, author = {Iliopoulos, CS and Lecroq, T}, title = {String algorithmics}, publisher = {King's College London Publications}, year = {2004} }
1 Publication internationale Lecroq, T & Lefebvre, A. Different applications of the factor oracle: an overview. String algorithmics, Pages 129-154, King's College London Publications, 2004.
BibTeX: @incollection{Lecroq2004, author = {Lecroq, T and Lefebvre, A}, title = {Different applications of the factor oracle: an overview}, booktitle = {String algorithmics}, publisher = {King's College London Publications}, year = {2004}, pages = {129--154} }
1 Publication internationale Névéol, A; Soualmia, L; Douyère, M; Rogozan, A; Thirion, B & Darmoni, SJ. Using CISMeF MeSH "Encapsulated" terminology and a categorization algorithm for health resources.. Int J Med Inform , Feb, Volume 73, Number 1, Pages 57-64, 2004.
Abstract: INTRODUCTION: CISMeF is a Quality Controlled Health Gateway using a terminology based on the Medical Subject Headings (MeSH) thesaurus that displays medical specialties (metaterms) and the relationships existing between them and MeSH terms. Objective: The need to classify the resources within the catalogue has led us to combine this type of semantic information with domain expert knowledge for health resources categorization purposes. Material and METHODS: A two-step categorization process consisting of mapping resource keywords to CISMeF metaterms and ranking metaterms by decreasing coverage in the resource has been developed. We evaluate this algorithm on a random set of 123 resources extracted from the CISMeF catalogue. Our gold standard for this evaluation is the manual classification provided by a domain expert, viz. a librarian of the team. RESULTS: The CISMeF algorithm shows 81% precision and 93% recall, and 62% of the resources were assigned a "fully relevant" or "fairly relevant" categorization according to strict standards. DISCUSSION: A thorough analysis of the results has enabled us to find gaps in the knowledge modeling of the CISMeF terminology. The necessary adjustments having been made, the algorithm is currently used in CISMeF for resource categorization.
BibTeX: @article{Neveol2004, author = {Névéol, A and Soualmia, L and Douyère, M and Rogozan, A and Thirion, B and Darmoni, SJ}, title = {Using CISMeF MeSH "Encapsulated" terminology and a categorization algorithm for health resources.}, month = {Feb}, journal = {Int J Med Inform}, year = {2004}, volume = {73}, number = {1}, pages = {57--64}, doi = {10.1016/j.ijmedinf.2003.09.004} }
2 Publication nationale Gehanno, JF; Darmoni, SJ & Caillard, JF. Erreurs dans les bibliographies des articles citant des publications de sante au travail. Une menace pour l'Evidence Based Medicine. Archives des Maladies Professionnelles et de l'Environnement , May, Volume 65, Pages 195, 2004.
BibTeX: @article{Gehanno2004, author = {Gehanno, JF and Darmoni, SJ and Caillard, JF}, title = {Erreurs dans les bibliographies des articles citant des publications de sante au travail. Une menace pour l'Evidence Based Medicine}, month = {May}, journal = {Archives des Maladies Professionnelles et de l'Environnement}, year = {2004}, volume = {65}, pages = {195}, url = {http://www.sciencedirect.com/science/article/B8JFG-4RBV0BK-7S/2/2ec8d80eb1cc603d3d3530822330d83e}, doi = {10.1016/S1775-8785(04)93253-5} }
2 Publication nationale Groult, R. Détection de répétitions en tandem avec évolution : application aux séquences biologiques. School: Université de Rouen, France, 2004.
BibTeX: @phdthesis{Groult2004b, author = {Groult, R}, title = {D\'etection de r\'ep\'etitions en tandem avec \'evolution : application aux s\'equences biologiques}, school = {Universit\'e de Rouen, France}, year = {2004} }
2 Publication nationale Pelfrêne, J. Extraction de mots approchés. School: Université de Rouen, France, 2004.
BibTeX: @phdthesis{Pelfrene2004, author = {Pelfrêne, J}, title = {Extraction de mots approch\'es}, school = {Universit\'e de Rouen, France}, year = {2004} }
2 Publication nationale Soualmia, L. Etude et Evaluation d'Approches Multiples de Projection de Requêtes pour une Recherche d'Information Intelligente. Application au domaine de la Santé sur l'Internet. Thèse d'informatique. School: INSA de Rouen, 2004.
BibTeX: @phdthesis{Soualmia2004e, author = {Soualmia, L}, title = {Etude et Evaluation d'Approches Multiples de Projection de Requêtes pour une Recherche d'Information Intelligente. Application au domaine de la Santé sur l'Internet. Thèse d'informatique}, school = {INSA de Rouen}, year = {2004}, url = {http://www.chu-rouen.fr/l@stics/Lina_Soualmia_These_Version_PDF.pdf} }
2 Publication nationale Touyar, N. Étude du nombre de répétitions maximales à gauche non chevauchantes dans les séquences d'ADN. School: Université de Rouen, France, 2004.
BibTeX: @phdthesis{Touyar2004, author = {Touyar, N}, title = {\'Etude du nombre de r\'ep\'etitions maximales \`a gauche non chevauchantes dans les s\'equences d'ADN}, school = {Universit\'e de Rouen, France}, year = {2004} }
3 Communication internationale Gehanno, JF. The Usefulness of Available Databases on Self Training.. EASOM Summer School, Belgrade, Serbia, August, 2004.
BibTeX: @inproceedings{Gehanno2004a, author = {Gehanno, JF}, title = {The Usefulness of Available Databases on Self Training.}, booktitle = {EASOM Summer School}, address = {Belgrade, Serbia}, month = {August}, year = {2004} }
3 Communication internationale Soualmia, L & Darmoni, SJ. Correcting and Refining Users QUeries: the Contribution of Morphological Knowledge and Association rules.. IPMU, Information Processing and Management of Uncertainty in Knowledge-Based Systems, Perugia, Italy, July, Pages 2059?2066, 2004.
BibTeX: @inproceedings{Soualmia2004, author = {Soualmia, L and Darmoni, SJ}, title = {Correcting and Refining Users QUeries: the Contribution of Morphological Knowledge and Association rules.}, booktitle = {IPMU, Information Processing and Management of Uncertainty in Knowledge-Based Systems}, address = {Perugia, Italy}, month = {July}, year = {2004}, pages = {2059?2066} }
3 Communication internationale Soualmia, L & Darmoni, SJ. Combining Knowledge-based Methods to Refine and Expand Queries in Medicine.. Flexible Query Answering Systems, Pages 243-255, 2004.
Abstract: Information retrieval remains problematic in spite of the numerous existing search engines. It is the same problem for health information retrieval. We propose in this paper to combine three knowledge-based methods to enhance information retrieval using query expansion in the context of the CISMeF project (Catalogue and Index of French-speaking Medical Sites) in which the resources are indexed according to a structured terminology of the medical domain and a set of metadata. The first method consists of building and using morphological knowledge of the terms. The second method consists of extracting association rules between terms by applying a data mining technique over the indexed resources. The last method consists of formalizing the terminology using the OWL-DL language to benefit from its powerful reasoning mechanisms. We describe how these methods could be used conjointly in the KnowQuE prototype (Knowledge-based Query Expansion) and we give some preliminary results.
BibTeX: @inproceedings{Soualmia2004a, author = {Soualmia, L and Darmoni, SJ}, title = {Combining Knowledge-based Methods to Refine and Expand Queries in Medicine.}, booktitle = {Flexible Query Answering Systems}, year = {2004}, pages = {243-255}, doi = {10.1007/b98090} }
3 Communication internationale Soualmia, L; Golbreich, C & Darmoni, SJ. Representing the MeSH in OWL: Towards a semi-automatic migration.. KR-MED 2004, Workshop on Knowledge Representation in Biomedicine, Whistler, BC, Canada, July, 2004.
BibTeX: @inproceedings{Soualmia2004b, author = {Soualmia, L and Golbreich, C and Darmoni, SJ}, title = {Representing the MeSH in OWL: Towards a semi-automatic migration.}, booktitle = {KR-MED 2004, Workshop on Knowledge Representation in Biomedicine}, address = {Whistler, BC, Canada}, month = {July}, year = {2004}, url = {http://sunsite.informatik.rwth-aachen.de/Publications/CEUR-WS/Vol-102/soualmia.pdf} }
3 Communication internationale Thirion, B; Douyère, M; Soualmia, L; Dahamna, B; Leroy, JP & Darmoni, SJ. Metadata element sets in the CISMeF Quality-Controlled Health Gateway.. International Conference on Dublin Core and Metadata Applications, Shanghai, China, October, 2004.
BibTeX: @inproceedings{Thirion2004, author = {Thirion, B and Douyère, M and Soualmia, L and Dahamna, B and Leroy, JP and Darmoni, SJ}, title = {Metadata element sets in the CISMeF Quality-Controlled Health Gateway.}, booktitle = {International Conference on Dublin Core and Metadata Applications}, address = {Shanghai, China}, month = {October}, year = {2004}, url = {http://journals.sfu.ca/dcpapers/2004/Paper_13.pdf} }
4 Communication nationale Gehanno, JF; Darmoni, SJ & Caillard, JF. Erreurs dans les bibliographies des articles citant des publications de santé au travail. Une menace pour l'Evidence Based Medicine.. 28eme Congrès National de Médecine et Santé au Travail, Bordeaux, France, Juin, 2004.
BibTeX: @inproceedings{Gehanno2004b, author = {Gehanno, JF and Darmoni, SJ and Caillard, JF}, title = {Erreurs dans les bibliographies des articles citant des publications de santé au travail. Une menace pour l'Evidence Based Medicine.}, booktitle = {28eme Congrès National de Médecine et Santé au Travail}, address = {Bordeaux, France}, month = {Juin}, year = {2004} }
4 Communication nationale Névéol, A. Indexation automatique de ressources de santé à l?aide d?un vocabulaire contrôlé. Rencontre des Etudiants Chercheurs en Informatique pour le Traitement Automatique des Langues (RECITAL), Fès, Maroc, Avril, 2004.
BibTeX: @inproceedings{A.2004, author = {Névéol, A}, title = {Indexation automatique de ressources de santé à l?aide d?un vocabulaire contrôlé}, booktitle = {Rencontre des Etudiants Chercheurs en Informatique pour le Traitement Automatique des Langues (RECITAL)}, address = {Fès, Maroc}, month = {Avril}, year = {2004}, url = {http://aune.lpl.univ-aix.fr/jep-taln04/proceed/actes/recital2004/Neveol.rec04.pdf} }
4 Communication nationale Névéol, A; Douyère, M; Rogozan, A & Darmoni, SJ. Construction de ressources terminologiques en santé pour un système d?indexation automatique.. Journées INTEX/NOOJ, Tours, France, 2004.
BibTeX: @inproceedings{Neveol2004c, author = {Névéol, A and Douyère, M and Rogozan, A and Darmoni, SJ}, title = {Construction de ressources terminologiques en santé pour un système d?indexation automatique.}, booktitle = {Journées INTEX/NOOJ}, address = {Tours, France}, year = {2004} }
4 Communication nationale Névéol, A; Soualmia, L; Rogozan, A; Douyère, M; Thirion, B & Darmoni, SJ. Caractérisation des contenus de l?Internet en santé : l'exemple CISMeF.. Journée ATALA, Paris, France, Janvier, 2004.
BibTeX: @inproceedings{Neveol2004b, author = {Névéol, A and Soualmia, L and Rogozan, A and Douyère, M and Thirion, B and Darmoni, SJ}, title = {Caractérisation des contenus de l?Internet en santé : l'exemple CISMeF.}, booktitle = {Journée ATALA}, address = {Paris, France}, month = {Janvier}, year = {2004}, url = {http://aurelie.neveol.free.fr/NeveolATALA04.pdf} }
4 Communication nationale Sibert, L; Dahamna, B; Darmoni, SJ; Weber, J; Lechevallier, J & Lanson, Y. Evaluation du raisonnement clinique en urologie. Internet et Pédagogie Médicale (IPM), Grenoble, France, Octobre, 2004.
BibTeX: @inproceedings{Louis2004, author = {Sibert, L and Dahamna, B and Darmoni, SJ and Weber, J and Lechevallier, J and Lanson, Y}, title = {Evaluation du raisonnement clinique en urologie}, booktitle = {Internet et Pédagogie Médicale (IPM)}, address = {Grenoble, France}, month = {Octobre}, year = {2004}, url = {http://www.canal-u.fr/index.php/canalu/producteurs/canal_u_medecine/dossier_programmes/urologie/colloque_et_evenement__1/ipm_2004_evaluation_du_raisonnement_clinique_en_urologie} }
4 Communication nationale Soualmia LF.,. Dahamna B, Darmoni SJ.. Représentation du thésaurus MeSH et de la terminologie CISMeF en OWL.. Second Séminaire Web Seménantique Médical, Rouen, France, Mars, 2004.
BibTeX: @inproceedings{Soualmia2004d, author = {Soualmia LF.,. Dahamna B, Darmoni SJ.}, title = {Représentation du thésaurus MeSH et de la terminologie CISMeF en OWL.}, booktitle = {Second Séminaire Web Seménantique Médical}, address = {Rouen, France}, month = {Mars}, year = {2004} }
4 Communication nationale Soualmia, L; Névéol, A; Rogozan, A; Douyère, M; Thirion, B & Darmoni, SJ. Une Terminologie du Domaine Médical : Structure et Exploitation.. Atelier ATALA, Lyon, France, Janvier, 2004.
BibTeX: @inproceedings{Soualmia2004c, author = {Soualmia, L and Névéol, A and Rogozan, A and Douyère, M and Thirion, B and Darmoni, SJ}, title = {Une Terminologie du Domaine Médical : Structure et Exploitation.}, booktitle = {Atelier ATALA}, address = {Lyon, France}, month = {Janvier}, year = {2004} }
5 Résumé Burgun, A; Darmoni, SJ; Le Duff, F & Weber, J. Combining problem-based learning and information technology: an experiment with third-year medical students.. 11th International Ottawa Conference on Medical Education, Barcelona, Spain, July, 2004.
BibTeX: @inproceedings{Burgun2004, author = {Burgun, A and Darmoni, SJ and Le Duff, F and Weber, J}, title = {Combining problem-based learning and information technology: an experiment with third-year medical students.}, booktitle = {11th International Ottawa Conference on Medical Education}, address = {Barcelona, Spain}, month = {July}, year = {2004} }
5 Résumé Dahamna, B; Darmoni, SJ; Roth-Berghofer, TR; Köhler, C; Mayer, MA; Noelle, G & Eysenbach G. Trust heritage in a Quality-Controlled Health Gateway.. Medinfo 2004, Eleventh World Congress on Health and Medical Informatics, San Francisco, USA, September, Pages 1564, 2004.
BibTeX: @inproceedings{Dahamna2004, author = {Dahamna, B and Darmoni, SJ and Roth-Berghofer, TR and Köhler, C and Mayer, MA and Noelle, G and Eysenbach G}, title = {Trust heritage in a Quality-Controlled Health Gateway.}, booktitle = {Medinfo 2004, Eleventh World Congress on Health and Medical Informatics}, address = {San Francisco, USA}, month = {September}, year = {2004}, pages = {1564} }
5 Résumé Darmoni, SJ; Douyère, M; Sibert, L; Hamon, A; Leuraud, K; Benichou, J & Weber, J. Assessment of a quality-controlled health gateway to facilitate access to teaching resources on the Internet: a technological trial.. Ottawa Conference on Medical Education, Barcelona, Spain, July, 2004.
Abstract: Summary: Objective: Measuring the impact of training on student-users of CISMeF (Catalog and Index of Health Resources on the Internet) quality-controlled health gateway. Design: Prospective group-randomised technological trial Participants: Fifty-six third-year medical students of the Rouen Medical School, France on a voluntary basis. One group with training (28); one group untrained (28). Participants were directed to use the CISMeF health information portal (URL: www.chu-rouen.fr or www.cismef.org) to find one teaching document dealing with each of the following objectives: semiology of asthma, main germs of infectious endocarditis, risk factors of colon cancer, and aetiology of hematuria Main outcome measures: Success or failure to find a teaching document in a maximum of 10 minutes, time spent and number of clicks to find it. Results: One-hour training session significantly improved the students? ability to search and access teaching resources: 64% of the students (18 out of 28) found a valid teaching resource for each teaching objective in the untrained group vs. 96% (27 out of 28) in the trained group (p=0.005, Fisher?s exact test). Conclusion: Health information portals may increase access to quality-controlled teaching documents.
BibTeX: @inproceedings{Darmoni2004b, author = {Darmoni, SJ and Douyère, M and Sibert, L and Hamon, A and Leuraud, K and Benichou, J and Weber, J}, title = {Assessment of a quality-controlled health gateway to facilitate access to teaching resources on the Internet: a technological trial.}, booktitle = {Ottawa Conference on Medical Education}, address = {Barcelona, Spain}, month = {July}, year = {2004} }
5 Résumé Darmoni, SJ; Thirion, B; Douyère, M; Dahamna, B & Weber, J. A Quality-Controlled Health Gateway to disseminate French pre-Residency Examination Program teaching resources on the Internet.. Medinfo 2004, Eleventh World Congress on Health and Medical Informatics, San Francisco, USA, September, 2004.
BibTeX: @inproceedings{Darmoni2004a, author = {Darmoni, SJ and Thirion, B and Douyère, M and Dahamna, B and Weber, J}, title = {A Quality-Controlled Health Gateway to disseminate French pre-Residency Examination Program teaching resources on the Internet.}, booktitle = {Medinfo 2004, Eleventh World Congress on Health and Medical Informatics}, address = {San Francisco, USA}, month = {September}, year = {2004} }
5 Résumé Névéol, A; Rogozan, A & Darmoni, SJ. Automatic indexing of health resources in French with a controlled vocabulary for the CISMeF catalogue: a preliminary study.. Medinfo 2004, Eleventh World Congress on Health and Medical Informatics, San Francisco, USA, September, 2004.
BibTeX: @inproceedings{Neveol2004a, author = {Névéol, A and Rogozan, A and Darmoni, SJ}, title = {Automatic indexing of health resources in French with a controlled vocabulary for the CISMeF catalogue: a preliminary study.}, booktitle = {Medinfo 2004, Eleventh World Congress on Health and Medical Informatics}, address = {San Francisco, USA}, month = {September}, year = {2004}, url = {http://aurelie.neveol.free.fr/NeveolMedinfo04.pdf} }
5 Résumé Sibert, L; Dahamna, B; Darmoni, SJ; Weber, J & Lechevallier, J. A Website to validate the Script Concordance test on a large scale: A pilot study in Urology.. 11th International Ottawa Conference on Medical Education, Barcelona, Spain, July, 2004.
BibTeX: @inproceedings{Sibert2004, author = {Sibert, L and Dahamna, B and Darmoni, SJ and Weber, J and Lechevallier, J}, title = {A Website to validate the Script Concordance test on a large scale: A pilot study in Urology.}, booktitle = {11th International Ottawa Conference on Medical Education}, address = {Barcelona, Spain}, month = {July}, year = {2004} }
5 Résumé Wascat, C; Beuscart-Zéphir, MC; Anceaux, F; Alao, O & Darmoni, SJ. Evaluation of the difficulties faced by users of a search engine of a medical web site : the example of Doc?CISMeF. Medinfo 2004, Eleventh World Congress on Health and Medical Informatics, San Francisco, USA, September, 2004.
BibTeX: @inproceedings{Wascat2004, author = {Wascat, C and Beuscart-Zéphir, MC and Anceaux, F and Alao, O and Darmoni, SJ}, title = {Evaluation of the difficulties faced by users of a search engine of a medical web site : the example of Doc?CISMeF}, booktitle = {Medinfo 2004, Eleventh World Congress on Health and Medical Informatics}, address = {San Francisco, USA}, month = {September}, year = {2004}, url = {http://www.univ-lille2.fr/evalab/publisPDF/68%20wascat%20medinfo%202004.pdf} }
2003 1 Publication internationale Crochemore, M; Hancart, C & Lecroq, T. A unifying look at the Apostolico-Giancarlo string matching algorithm. Journal of Discrete Algorithms , Volume 1, Number 1, Pages 37-52, 2003.
BibTeX: @article{Crochemore2003a, author = {Crochemore, M and Hancart, C and Lecroq, T}, title = {A unifying look at the {Apostolico-Giancarlo} string matching algorithm}, journal = {Journal of Discrete Algorithms}, year = {2003}, volume = {1}, number = {1}, pages = {37--52}, doi = {10.1016/S1570-8667(03)00005-4} }
1 Publication internationale Crochemore, M; Iliopoulos, CS; Lecroq, T; Pinzon, YJ; Plandowski, W & Rytter, W. Occurrence and Substring Heuristics for $-Matching. Fundamenta Informaticae , Volume 56, Number 1--2, Pages 1-21, 2003.
BibTeX: @article{Crochemore2003, author = {Crochemore, M and Iliopoulos, CS and Lecroq, T and Pinzon, YJ and Plandowski, W and Rytter, W}, title = {Occurrence and Substring Heuristics for $\delta$-Matching}, journal = {Fundamenta Informaticae}, year = {2003}, volume = {56}, number = {1--2}, pages = {1--21}, url = {http://iospress.metapress.com/content/0mc4986ycm8nyutv} }
1 Publication internationale Darmoni, SJ; Amsallem, E; Haugh, M; Lukacs, B; Leroux, V; Thirion, B; Weber, J & Boissel, JP. Level of evidence as a future gold standard for the content quality of health resources on the internet.. Methods Inf Med , Volume 42, Number 3, Pages 220-225, 2003.
Abstract: OBJECTIVE: An assessment of the quality of health information on the Internet is an absolute necessity. In this study 'sensitive' information was defined as information found in documents published on the Internet, which could be used in a medical decision. For sensitive information, the main criterion chosen for the quality of the information was an indication of the level of evidence. A survey was conducted using the CISMeF health catalogue to assess how often a score of the level of evidence is mentioned in the information accessible on the Internet in French-language health resources. METHODS: Since 1999, members of the CISMeF team have systematically been searching for all documents containing 'sensitive' information and verifying whether the level of evidence was explicitly indicated as a score at least once in the document. RESULTS: As of June 2001, 10,190 resources were included in CISMeF; including 2964 textual 'sensitive' resources (29.1. Out of all these resources, only 4.7% (95% confidence interval: 4.0 - 5.5 indicated the level of evidence. A statistically significant difference in the prevalence of indicating the level of evidence according to resource types (e.g., 18.1% for guidelines compared to 0.0% for teaching material), year of publication (almost three times greater in 1997-2001 compared with 1990-1996) and publishers was observed. CONCLUSION: As the number of people accessing the growing amount of information on the Internet is increasing daily, publishers have an ethical obligation to inform their readers about the validity of 'sensitive' information their sites contain. However, the vast majority of the French language Internet resources that were surveyed do not mention a score of the level of evidence for their sensitive information.
BibTeX: @article{Darmoni2003a, author = {Darmoni, SJ and Amsallem, E and Haugh, M and Lukacs, B and Leroux, V and Thirion, B and Weber, J and Boissel, JP}, title = {Level of evidence as a future gold standard for the content quality of health resources on the internet.}, journal = {Methods Inf Med}, year = {2003}, volume = {42}, number = {3}, pages = {220--225}, doi = {10.1267/METH03030220} }
1 Publication internationale Lefebvre, A; Lecroq, T & Alexandre, J. Drastic improvements over repeats found with a factor oracle. Journal of Automata Language and Combinatorics , Volume 8, Number 4, Pages 647-658, 2003.
BibTeX: @article{Lefebvre2003a, author = {Lefebvre, A and Lecroq, T and Alexandre, J}, title = {Drastic improvements over repeats found with a factor oracle}, journal = {Journal of Automata Language and Combinatorics}, year = {2003}, volume = {8}, number = {4}, pages = {647--658} }
1 Publication internationale Lefebvre, A; Lecroq, T; Dauchel, H & Alexandre, J. FORRepeats: detects repeats on entire chromosomes and between genomes. Bioinformatics , Volume 19, Number 3, Pages 319-326, 2003.
BibTeX: @article{Lefebvre2003, author = {Lefebvre, A and Lecroq, T and Dauchel, H and Alexandre, J}, title = {{FORRepeats}: detects repeats on entire chromosomes and between genomes}, journal = {Bioinformatics}, year = {2003}, volume = {19}, number = {3}, pages = {319--326}, doi = {10.1093/bioinformatics/btf843} }
1 Publication internationale Mercier, S; Cellier, D & Charlot, D. An improved approximation for assessing the statistical significance of molecular sequence features. Journal of Applied Probability , Volume 40, Pages 427-441, 2003.
BibTeX: @article{Mercier2003, author = {Mercier, S and Cellier, D and Charlot, D}, title = {An improved approximation for assessing the statistical significance of molecular sequence features}, journal = {Journal of Applied Probability}, year = {2003}, volume = {40}, pages = {427--441}, url = {http://projecteuclid.org/euclid.jap/1053003554}, doi = {10.1239/jap/1053003554} }
2 Publication nationale DARMONI, SJ; THIBAUT, F & WEBER, J. L'universite medicale virtuelle. Confrontations psychiatriques. , Number 44, Pages 147-154, 2003.
Abstract: Les technologies de l'information et de la communication prennent une place de plus en plus importante dans les Facultés de médecine. Il peut s'agir de l'utilisation de polycopiés sur le WEB au lieu des polycopiésclassiques, de l'offre de ressources utilisant le multimédia et l'interactivité, ou encore de l'apprentissage de la pratique médicale à l'aide de patients virtuels. Le projet d'Université médicale virtuelle francophone mis en place en 1999 sera développé dans l'article. Parmi les avantages attendus de ces techniques on peut évoquer l'autonomie d'apprentissage des étudiants, et leur envie de continuer à se former.
BibTeX: @article{DARMONI2003, author = {DARMONI, SJ and THIBAUT, F and WEBER, J}, title = {L'universite medicale virtuelle}, journal = {Confrontations psychiatriques.}, year = {2003}, number = {44}, pages = {147-154}, url = {http://cat.inist.fr/?aModele=afficheN&cpsidt=17304044} }
2 Publication nationale Douyère, M; Thirion, B; Leroy, JP; Dahamna, B & Darmoni, SJ. Doc'CISMEF : un outil de recherche Internet dirigé vers l'enseignement de la médecine.. Document Numérique , Volume 7, Number 1-2, Pages 129-140, 2003. Numéro Spécial "Document et éducation" sous la direction de Christine Vanoirbeek et Omar Abou Khaled.
Abstract: Le nombre de ressources disponibles sur l?internet concernant l?enseignement de la médecine est en croissance permanente. Il devient de plus en plus difficile, pour l?étudiant comme pour l?enseignant, de repérer des documents de qualité et répondant à une question précise. CISMeF et son outil de recherche associé Doc?CISMeF, permettent de répondre à cette attente. Ils sont fondés sur un modèle d?information qui intègre les mots-clés et les qualificatifs du thesaurus MeSH et y adjoint deux concepts supplémentaires avec les métatermes et les types de ressources. La réalisation du catalogue s?appuie sur une sélection rigoureuse des ressources notamment au regard de critères de qualité stricts (grille de critères du NetScoring et langage de métadonnées HIDDEL). Plusieurs modes de recherche sont proposés. La recherche « avancée » permet des requêtes élaborées, pouvant combiner plusieurs champs grâce aux opérateurs booléens ET, OU, SAUF. Doc?CISMeF a été choisi pour être un des outils de recherche de l?Université Médicale Virtuelle Francophone (UMVF).
BibTeX: @article{Magaly2003, author = {Douyère, M and Thirion, B and Leroy, JP and Dahamna, B and Darmoni, SJ}, title = {Doc'CISMEF : un outil de recherche Internet dirigé vers l'enseignement de la médecine.}, journal = {Document Numérique}, year = {2003}, volume = {7}, number = {1-2}, pages = {129-140}, note = {Numéro Spécial "Document et éducation" sous la direction de Christine Vanoirbeek et Omar Abou Khaled}, url = {http://www.cairn.info/revue-document-numerique-2003-1-p-129.htm} }
2 Publication nationale Lefebvre, A. Une nouvelle heuristique pour la détection de répétitions sur des génomes complets, pour la comparaison de génomes et pour la compression. School: Université de Rouen, France, 2003.
BibTeX: @phdthesis{Lefebvre2003b, author = {Lefebvre, A}, title = {Une nouvelle heuristique pour la d\'etection de r\'ep\'etitions sur des g\'enomes complets, pour la comparaison de g\'enomes et pour la compression}, school = {Universit\'e de Rouen, France}, year = {2003} }
3 Communication internationale A. NEVEOL, LF. SOUALMIA, A. ROGOZAN, M. DOUYERE, Darmoni, SJ.. Utilisation des propriétés sémantiques de la terminologie CISMeF pour la catégorisation de ressources de santé.. JFIM, Volume (In Press), 2003.
BibTeX: @inproceedings{A.2003, author = {A. NEVEOL, LF. SOUALMIA, A. ROGOZAN, M. DOUYERE, Darmoni, SJ.}, title = {Utilisation des propriétés sémantiques de la terminologie CISMeF pour la catégorisation de ressources de santé.}, booktitle = {JFIM}, year = {2003}, volume = {(In Press)}, url = {http://aurelie.neveol.free.fr/NeveolJFIM03.pdf} }
3 Communication internationale Beuscart-Zephir, MC; Leroy, N; Watbled, L; Guerlinger, S; Wascat, C & Darmoni, SJ. Evaluation de l?utilisabilité d?un site francophone de resources médicales en ligne : l?exemple de CISMeF. JFIM, 9èmes Journées Francophone d?Informatique Médicale, Québec, Canada, Mai, 2003.
BibTeX: @inproceedings{Beuscart-Zephir2003, author = {Beuscart-Zephir, MC and Leroy, N and Watbled, L and Guerlinger, S and Wascat, C and Darmoni, SJ}, title = {Evaluation de l?utilisabilité d?un site francophone de resources médicales en ligne : l?exemple de CISMeF}, booktitle = {JFIM, 9èmes Journées Francophone d?Informatique Médicale}, address = {Québec, Canada}, month = {Mai}, year = {2003}, url = {http://www.univ-lille2.fr/evalab/publisPDF/31%20mcbz%20JFIM%202002.pdf} }
3 Communication internationale S. J. Darmoni; E. Jarrousse; P. Zweigenbaum; P. Le Beux; F. Namer; R. Baud; M. Joubert; H. Vallée; R. A. Côté; A. Buemi; D. Bourigault; G. Recource; S. Jeanneau & J. M. Rodrigues. VUMeF: extending the French involvement in the UMLS Metathesaurus.. AMIA Annu Symp Proc , Pages 824, 2003.
Abstract: A considerable number of robust vocabularies and thesauri have been developed for the healthcare and biomedical domain. No single vocabulary, however; provides complete coverage of the information needs from a public health perspective. The results of an investigation of vocabulary sources for the development of a comprehensive controlled vocabulary for the public health domain at the Centers for Disease Control and Prevention (CDC) is presented.
BibTeX: @article{Darmoni2003, author = {S. J. Darmoni and E. Jarrousse and P. Zweigenbaum and P. Le Beux and F. Namer and R. Baud and M. Joubert and H. Vallée and R. A. Côté and A. Buemi and D. Bourigault and G. Recource and S. Jeanneau and J. M. Rodrigues}, title = {VUMeF: extending the French involvement in the UMLS Metathesaurus.}, journal = {AMIA Annu Symp Proc}, year = {2003}, pages = {824}, url = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=1480335} }
3 Communication internationale Darmoni, SJ. B. THIRION, B. POURCHEZ, J. WEBER.. Use of Information and Communication Technologies to retrieve French pre-Residency Examination Program teaching resources on the Internet.. MIE, 2003.
BibTeX: @inproceedings{SJ.2003, author = {Darmoni, SJ. B. THIRION, B. POURCHEZ, J. WEBER.}, title = {Use of Information and Communication Technologies to retrieve French pre-Residency Examination Program teaching resources on the Internet.}, booktitle = {MIE}, year = {2003}, url = {http://www.med.univ-rennes1.fr/resped/s/mie/CISMeFInternat%20MIE%202003.ppt} }
3 Communication internationale J.-P. Duval; R. Kolpakov; G. Kucherov; T. Lecroq & A. Lefebvre. Linear-Time Computation of Local Periods. Proceedings of the 28th International Symposium on Mathematical Fondations of Computer Science, Bratislava, Slovak Republic, Lecture Notes in Computer Science, Number 2747, Pages 388-397, Springer Verlag Berlin, 2003.
BibTeX: @inproceedings{Duval2003, author = {J.-P. Duval and R. Kolpakov and G. Kucherov and T. Lecroq and A. Lefebvre}, title = {Linear-Time Computation of Local Periods}, booktitle = {Proceedings of the 28th International Symposium on Mathematical Fondations of Computer Science}, address = {Bratislava, Slovak Republic}, publisher = {Springer Verlag Berlin}, year = {2003}, series = {Lecture Notes in Computer Science}, number = {2747}, pages = {388--397}, doi = {10.1007/b11836} }
3 Communication internationale Natalia Grabar; Pierre Zweigenbaum; Lina Soualmia & Stéfan Darmoni. Matching controlled vocabulary words.. Stud Health Technol Inform , Volume 95, Pages 445-450, 2003.
Abstract: This study examines an enabling condition for natural languages access to medical knowledge resources (Medline, CISMeF) indexed with controlled vocabularies (e.g., the MeSH): is the vocabulary of user queries comparable with that of the index terms? The two vocabularies were compared in their original form, then under incrementally normalized forms, using character-based normalizations then linguistic normalizations. Only 16.7% of the user vocabulary, in its original form, is in the MeSH. Progressive normalizations increase this proportion to 65.5 Besides, if the frequencies of occurrence of words are taken into account, 89.3% of user word occurrences can be matched to MeSH words. This shows the interest of taking into account further matching methods between queries and index terms than those presented here.
BibTeX: @article{Grabar2003, author = {Natalia Grabar and Pierre Zweigenbaum and Lina Soualmia and Stéfan Darmoni}, title = {Matching controlled vocabulary words.}, journal = {Stud Health Technol Inform}, year = {2003}, volume = {95}, pages = {445--450} }
3 Communication internationale Groult, R; Léonard, M & Mouchard, L. A linear algorithm for the detection of evolutive tandem repeats. Proceedings of the Prague Stringology Conference (PSC 2003), Prague, République Tchèque, Pages 77-90, 2003.
BibTeX: @inproceedings{Groult2003, author = {Groult, R and Léonard, M and Mouchard, L}, title = {A linear algorithm for the detection of evolutive tandem repeats}, booktitle = {Proceedings of the Prague Stringology Conference (PSC 2003)}, address = {Prague, R\'epublique Tch\`eque}, year = {2003}, pages = {77--90} }
3 Communication internationale LF. SOUALMIA, C. BARRY, Darmoni, SJ.. Knowledge-Based Query Expansion over a Medical Terminology Oriented Ontology.. Artificial Intelligence in Medicine: 9th Conference on Artificial Intelligence in Medicine in Europe, AIME 2003, 2003.
Abstract: This paper deals with the problem of information retrieval on the Web and present the CISMeF project (acronym of Catalogue and Index of French-speaking Medical Sites). Information retrieval in the CISMeF catalogue is done with a terminology that is similar to ontology of medical domain and a set of metadata. This allows us to place the project at an overlap between the present Web, which is informal, and the forthcoming Semantic Web. We also describe an ongoing work, which consists of applying thr ee knowledge-based methods in order to enhance information retrieval.
BibTeX: @inproceedings{LF.2003c, author = {LF. SOUALMIA, C. BARRY, Darmoni, SJ.}, title = {Knowledge-Based Query Expansion over a Medical Terminology Oriented Ontology.}, booktitle = {Artificial Intelligence in Medicine: 9th Conference on Artificial Intelligence in Medicine in Europe, AIME 2003}, year = {2003}, url = {http://www.springerlink.com/content/qlatdrljyd51a8dh} }
3 Communication internationale M. A. Mayer; S. J. Darmoni; M. Fiene; C. Köhler; Thomas R Roth-Berghofer & G. Eysenbach. MedCIRCLE: collaboration for Internet rating, certification, labelling and evaluation of health information on the World-Wide-Web.. Stud Health Technol Inform , Volume 95, Pages 667-672, 2003.
Abstract: We describe MedCIRCLE, an EU-funded semantic web project to implement the first steps towards a global, collaborative rating and guidance system for health information proposed in the MedCERTAIN project. In MedCIRCLE, three European gateway sites for consumer health information will implement the metadata vocabulary HIDDEL (Health Information Disclosure, Description and Evaluation Language). HIDDEL allows portals and gateways to make the results of their evaluations accessible as XML/RDF. The three participating national portals are: AQUMED (Agency for Quality in Medicine) patienten-information, de, COMB (Official Medical College of Barcelona) and CISMeF, a quality-controlled health gateway developed at Rouen University Hospital. Other health subject gateways, accreditation, or rating services are invited to join the collaboration simply by implementing HIDDEL on their gateways. Widespread implementation HIDDEL will allow intelligent agents or client-side software to harvest statements and opinions about the trustworthiness of other websites, assisting users in selecting trustworthy websites. The MedCIRCLE project builds on, expands and continues work on rating health information on the Internet piloted within the MedCERTAIN project. While MedCERTAIN provided the core technologies and software for rating and "trustmarking" health information, MedCIRCLE is built around these technologies and involves a wider medical community to assess health information, demonstrating the power of collaborative and interoperable evaluations in a semantic web environment. MedCIRCLE is a project with the overall objective to develop and promote technologies able to guide consumers to trustworthy health information on the Internet, to establish a global web of trust for networked health information, and to empower consumers to positively select high quality health information on the web. Other aims include refinement and expansion of HIDDEL, to become a standard vocabulary and interchange format for self- and third-party ratings of health information.
BibTeX: @article{Mayer2003, author = {M. A. Mayer and S. J. Darmoni and M. Fiene and C. Köhler and Thomas R Roth-Berghofer and G. Eysenbach}, title = {MedCIRCLE: collaboration for Internet rating, certification, labelling and evaluation of health information on the World-Wide-Web.}, journal = {Stud Health Technol Inform}, year = {2003}, volume = {95}, pages = {667--672} }
3 Communication internationale P. ZWEIGENBAUM; R. BAUD, A. BURGUN, F. NAMER, E. JAROUSSE, N. GRABAR, P. RUCH, F. LE DUFF, B. THIRION, Darmoni, SJ.. UMLF : construction d?un lexique médical francophone unifié.. JFIM, 2003.
BibTeX: @inproceedings{P.2003, author = {P. ZWEIGENBAUM; R. BAUD, A. BURGUN, F. NAMER, E. JAROUSSE, N. GRABAR, P. RUCH, F. LE DUFF, B. THIRION, Darmoni, SJ.}, title = {UMLF : construction d?un lexique médical francophone unifié.}, booktitle = {JFIM}, year = {2003}, url = {http://estime.spim.jussieu.fr/~pz/FTPapiers/Zweigenbaum:JFIM2003.pdf} }
3 Communication internationale J. Pelfrêne; S. Abdeddaim & J. Alexandre. Extracting Approximate Patterns. Proceedings of the 14th Annual Symposium on Combinatorial Pattern Matching (CPM 2003), Morelia, Michocán, Mexique, Lecture Notes in Computer Science, Number 2676, Pages 328-347, Springer Verlag Berlin, 2003.
BibTeX: @inproceedings{Pelfrene2003, author = {J. Pelfr\^ene and S. Abdedda{\"\i}m and J. Alexandre}, title = {Extracting Approximate Patterns}, booktitle = {Proceedings of the 14th Annual Symposium on Combinatorial Pattern Matching (CPM 2003)}, address = {Morelia, Michoc\'an, Mexique}, publisher = {Springer Verlag Berlin}, year = {2003}, series = {Lecture Notes in Computer Science}, number = {2676}, pages = {328--347}, doi = {10.1007/3-540-44888-8_24} }
3 Communication internationale Rogozan, A.; Neveol, A. & Darmoni, S. J.. Text Categorization prior to Indexing for the CISMEF Health Catalogue. Artificial Intelligence in Medicine: 9th Conference on Artificial Intelligence in Medicine in Europe, AIME 2003, Protaras, Cyprus, October, Volume 2780, Pages 81-85, Springer, 2003.
Abstract: This paper is positioned within the development of an automated indexing system for the CISMeF quality controlled health gateway. For disambiguation purposes, we wish to perform text categorization prior to indexing. Hence, a global approach contrasting with the classical analytical methods based on the analysis of keyword counts extracted from the text is necessary. The use of statistical compression models enables us to proceed avoiding keyword extraction at this stage. Preliminary results show that althought this method is not as precise as others in terms of resource categorization, it can significantly benefit indexing.
BibTeX: @inproceedings{Rogozan2003, author = {Rogozan, A. and Neveol, A. and Darmoni, S. J.}, title = {Text Categorization prior to Indexing for the CISMEF Health Catalogue}, booktitle = {Artificial Intelligence in Medicine: 9th Conference on Artificial Intelligence in Medicine in Europe, AIME 2003}, address = {Protaras, Cyprus}, month = {October}, publisher = {Springer}, year = {2003}, volume = {2780}, pages = {81-85}, url = {http://aurelie.neveol.free.fr/RogozanAIME03.pdf}, doi = {10.1007/b12009} }
3 Communication internationale SOUALMIA, L & DARMONI, SJ. Etude du web sémantique : vers une recherche d?information intelligente en santé.. JFIM, 2003.
BibTeX: @inproceedings{SOUALMIA2003, author = {SOUALMIA, L and DARMONI, SJ}, title = {Etude du web sémantique : vers une recherche d?information intelligente en santé.}, booktitle = {JFIM}, year = {2003} }
3 Communication internationale Lina F Soualmia; Stéfan J Darmoni; Magaly Douyère & Benoît Thirion. Modelisation of consumer health information in a quality-controlled gateway.. Stud Health Technol Inform , Volume 95, Pages 701-706, 2003.
Abstract: The amount of health data accessible on the Web is increasing and Internet has become a major source of health information. Many tools and search engines are available but medical information retrieval remains difficult for both the health professional and the patients. In this paper we describe CISMeF-patients. It is a sub-part of CISMeF, a structured quality-controlled subject gateway. CISMeF-patients has been designed for the patients, their families and the general public who are often unfamiliar with the medical domain and the medical vocabulary. The resources included in CISMeF-patients are described using the Dublin Core metadata format. To index them, CISMeF-patients and CISMeF share the same terminology, which 'encapsulates' the MeSH thesaurus with a layer of synonyms. Unlike Medline-plus and Medline, sharing the same terminology allows to a CISMeF-patients end-user the possibility to extend his query to the CISMeF catalogue (e.g. for searching teaching resources or clinical guidelines).
BibTeX: @article{Soualmia2003, author = {Lina F Soualmia and Stéfan J Darmoni and Magaly Douyère and Benoît Thirion}, title = {Modelisation of consumer health information in a quality-controlled gateway.}, journal = {Stud Health Technol Inform}, year = {2003}, volume = {95}, pages = {701--706} }
3 Communication internationale Benoit Thirion; Gaelle Loosli; Magaly Douyère & Stéfan J Darmoni. Metadata element set in a quality-controlled subject gateway: a step to a health semantic Web.. Stud Health Technol Inform , Volume 95, Pages 707-712, 2003.
Abstract: BACKGROUND: Quality-controlled subject gateways are Internet services which apply a selected set of targeted measures to support systematic resource discovery. Considerable manual effort is used to process a selection of resources which meet quality criteria and to display a extensive description and indexing of these resources with standards-based metadata. OBJECTIVE: Several metadata element sets are proposed to describe, index and quality health resources to be included in a French quality-controlled health gateway called CISMeF. The main objectives were to enhance Internet health document retrieval and navigation, and to allow interoperability with other Internet services. RESULTS: The Dublin Core metadata element set is used to describe and index all Internet health resources included in CISMeF. For teaching resources, some elements from IEEE1484 Learning Object Metadata are also used. For evidenced-base medicine resources, specific metadata are employed which assess the health content quality. The HIDDEL metadata set is used to enhance transparency, trust and quality of health information on the Internet. CONCLUSION: Comprehensive metadata element sets can be extremely useful to describe, index and assess health resources on the Internet in a quality-controlled subject gateway. Machine-readable metadata creates an Semantic Web which is more efficient for end-users as compared to the current Web.
BibTeX: @article{Thirion2003, author = {Benoit Thirion and Gaelle Loosli and Magaly Douyère and Stéfan J Darmoni}, title = {Metadata element set in a quality-controlled subject gateway: a step to a health semantic Web.}, journal = {Stud Health Technol Inform}, year = {2003}, volume = {95}, pages = {707--712} }
3 Communication internationale Pierre Zweigenbaum; Robert Baud; Anita Burgun; Fiammetta Namer; Eric Jarrousse; Natalia Grabar; Patrick Ruch; Franck Le Duff; Benoît Thirion & Stéfan Darmoni. UMLF: a Unified Medical Lexicon for French.. AMIA Annu Symp Proc , Pages 1062, 2003.
Abstract: Lexical resources for medical language, such as lists of words with inflectional and derivational information, are publicly available for the English lantuate with the UMLS Specialist Lexicon. The goal of the UMLF project is to pool and unify existing resources and to add extensively to them by exploiting medical terminologies and corpora, resulting in a Unified Medical Lexicon for French. We present here the current status of the project.
BibTeX: @article{Zweigenbaum2003, author = {Pierre Zweigenbaum and Robert Baud and Anita Burgun and Fiammetta Namer and Eric Jarrousse and Natalia Grabar and Patrick Ruch and Franck Le Duff and Benoît Thirion and Stéfan Darmoni}, title = {UMLF: a Unified Medical Lexicon for French.}, journal = {AMIA Annu Symp Proc}, year = {2003}, pages = {1062}, url = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=1480196} }
3 Communication internationale Pierre Zweigenbaum; Robert Baud; Anita Burgun; Fiammetta Namer; Eric Jarrousse; Natalia Grabar; Patrick Ruch; Franck Le Duff; Benoît Thirion & Stéfan Darmoni. Towards a unified medical lexicon for French.. Stud Health Technol Inform , Volume 95, Pages 415-420, 2003.
Abstract: Medical Informatics has a constant need for basic Medical Language Processing tasks, e.g., for coding into controlled vocabularies, free text indexing and information retrieval. Most of these tasks involve term matching and rely on lexical resources: lists of words with attached information, including inflected forms and derived words, etc. Such resources are publicly available for the English language with the UMLS Specialist Lexicon, but not in other languages. For the French language, several teams have worked on the subject and built local lexical resources. The goal of the present work is to pool and unify these resources and to add extensively to them by exploiting medical terminologies and corpora, resulting in a unified medical lexicon for French (UMLF). This paper exposes the issues raised by such an objective, describes the methods on which the project relies and illustrates them with experimental results.
BibTeX: @article{Zweigenbaum2003a, author = {Pierre Zweigenbaum and Robert Baud and Anita Burgun and Fiammetta Namer and Eric Jarrousse and Natalia Grabar and Patrick Ruch and Franck Le Duff and Benoît Thirion and Stéfan Darmoni}, title = {Towards a unified medical lexicon for French.}, journal = {Stud Health Technol Inform}, year = {2003}, volume = {95}, pages = {415--420} }
4 Communication nationale C. WASCAT, N. LEROY, MC. BEUSCART-ZEPHIR, F. ANCEAUX, Darmoni, SJ.. Evaluation du niveau de difficulté rencontrée par les utilisateurs face à un moteur de recherche médical : l?exemple de Doc?CISMeF.. Internet et Pédagogie Médicale (IPM), Marseille, France, 2003.
BibTeX: @inproceedings{C.2003, author = {C. WASCAT, N. LEROY, MC. BEUSCART-ZEPHIR, F. ANCEAUX, Darmoni, SJ.}, title = {Evaluation du niveau de difficulté rencontrée par les utilisateurs face à un moteur de recherche médical : l?exemple de Doc?CISMeF.}, booktitle = {Internet et Pédagogie Médicale (IPM)}, address = {Marseille, France}, year = {2003} }
4 Communication nationale J. Ladner, M. Douyère , MP. Tavolacci, SJ. Darmoni, X. Coutour, P. Czernichow.. La formation en santé publique à portée d'un clic : un essai à transformer ?. Internet et Pédagogie Médicale (IPM), Marseille, France, 2003.
BibTeX: @inproceedings{J.2003, author = {J. Ladner, M. Douyère , MP. Tavolacci, SJ. Darmoni, X. Coutour, P. Czernichow.}, title = {La formation en santé publique à portée d'un clic : un essai à transformer ?}, booktitle = {Internet et Pédagogie Médicale (IPM)}, address = {Marseille, France}, year = {2003} }
4 Communication nationale LF. SOUALMIA, A. Néveol, B. DAHAMNA, M. DOUYERE, JL. LEROY, B. THIRION, Darmoni, SJ.. CISMeF dans l'infrastructure du Web Sémantique.. Premier Séminaire du Web Sémantique Médical, Rennes, France, 2003.
BibTeX: @inproceedings{LF.2003, author = {LF. SOUALMIA, A. Néveol, B. DAHAMNA, M. DOUYERE, JL. LEROY, B. THIRION, Darmoni, SJ.}, title = {CISMeF dans l'infrastructure du Web Sémantique.}, booktitle = {Premier Séminaire du Web Sémantique Médical}, address = {Rennes, France}, year = {2003}, url = {http://aurelie.neveol.free.fr/SoualmiaWSM03.pdf} }
4 Communication nationale LF. SOUALMIA, Darmoni, SJ.. Une Terminologie Orientée Ontologie pour la Recherche d'Information sur la Toile.. JFT, Pages 185-194, 2003.
Abstract: L?information accessible sur la Toile (ou Web) est disponible en quantité importante et elle ne cesse de croître. La recherche d?information demeure problématique malgré l?existence de nombreux moteurs de recherche et de sites catalogues en ligne. Le Web doit faire face aux problèmes d?exhaustivité et de précision en recherche d?information. Le projet CISMeF (Catalogue et Index de Sites Médicaux Francophones) a été développé afin de faciliter l?accès à l?information de santé disponible sur l?Internet. La problématique d?aujourd?hui se veut aussi être une recherche d?information intelligente dans l?infrastructure du Web Sémantique, une extension du web actuel qui permettrait de rendre interprétable le contenu des ressources par les hommes mais aussi par les machines, grâce à des ontologies et des méta-données. La recherche d?information dans CISMeF se fait à l?aide d?une terminologie semblable à une ontologie et un ensemble de méta-données qui nous permettent de placer le projet à cheval entre le Web actuel qui est informel, et le Web Sémantique de demain.
BibTeX: @inproceedings{LF.2003a, author = {LF. SOUALMIA, Darmoni, SJ.}, title = {Une Terminologie Orientée Ontologie pour la Recherche d'Information sur la Toile.}, booktitle = {JFT}, year = {2003}, pages = {185-194}, url = {http://www.antsearch.univ-tours.fr/jft2003/file/ActesJFT2003.pdf} }
4 Communication nationale LF. SOUALMIA, Darmoni, SJ.. Projection de Requêtes pour une Recherche d'Information Intelligente sur le Web.. RJCIA (Rencontres Jeunes Chercheurs en Intelligence Artificielle), Laval, France, Juillet, 2003.
BibTeX: @inproceedings{LF.2003b, author = {LF. SOUALMIA, Darmoni, SJ.}, title = {Projection de Requêtes pour une Recherche d'Information Intelligente sur le Web.}, booktitle = {RJCIA (Rencontres Jeunes Chercheurs en Intelligence Artificielle)}, address = {Laval, France}, month = {Juillet}, year = {2003}, url = {http://afia.lri.fr/plateforme-2003/Articles/RJCIA/rjcia-05-Soualmia.pdf} }
4 Communication nationale P. ZWEIGENBAUM, Darmoni, SJ, A. CRACIUN, P. JACQUEMART, LF. SOUALMIA.. Questions réponses dans le domaine médical.. Journées d'Étude de l'Association pour le Traitement Automatique des LAngues (ATALA), Paris, France, mai, 2003.
BibTeX: @inproceedings{P.2003a, author = {P. ZWEIGENBAUM, Darmoni, SJ, A. CRACIUN, P. JACQUEMART, LF. SOUALMIA.}, title = {Questions réponses dans le domaine médical.}, booktitle = {Journées d'Étude de l'Association pour le Traitement Automatique des LAngues (ATALA)}, address = {Paris, France}, month = {mai}, year = {2003} }
4 Communication nationale É. Rivals; G. Kucherov & T. Lecroq editors. Actes de la réunion des Actions Spécifiques og Algorithmes et Séquences fg et og Indexation de texte et découverte de motifs fg. , 2003. Montpellier, 20 et 21 novembre 2003 .
BibTeX: @misc{Rivals, author = {\'E. Rivals and G. Kucherov and T. Lecroq editors}, title = {Actes de la r\'eunion des Actions Sp\'ecifiques \og Algorithmes et S\'equences \fg\ et \og Indexation de texte et d\'ecouverte de motifs \fg}, year = {2003}, note = {Montpellier, 20 et 21 novembre 2003 } }
4 Communication nationale SJ. Darmoni, M. Douyère , A. Hamon, J. Benichou, J. Weber.. Evaluation d'un catalogue de santé pour diffuser des ressources pédagogiques sur l'Internet : une étude randomisée.. Internet et Pédagogie Médicale (IPM), Marseille, France, 2003.
BibTeX: @inproceedings{SJ.2003a, author = {SJ. Darmoni, M. Douyère , A. Hamon, J. Benichou, J. Weber.}, title = {Evaluation d'un catalogue de santé pour diffuser des ressources pédagogiques sur l'Internet : une étude randomisée.}, booktitle = {Internet et Pédagogie Médicale (IPM)}, address = {Marseille, France}, year = {2003} }
4 Communication nationale TD Tran, F. Mougin, SJ. Darmoni, P. Le Beux.. Indexation semi-automatique conceptuelle des cours de médecine de l'Université Médicale Virtuelle Francophone (UMVF).. Internet et Pédagogie Médicale (IPM), Marseille, France, 2003.
BibTeX: @inproceedings{TD2003, author = {TD Tran, F. Mougin, SJ. Darmoni, P. Le Beux.}, title = {Indexation semi-automatique conceptuelle des cours de médecine de l'Université Médicale Virtuelle Francophone (UMVF).}, booktitle = {Internet et Pédagogie Médicale (IPM)}, address = {Marseille, France}, year = {2003} }
2002 1 Publication internationale J. M. Brunetaud; S. Darmoni; N. Souf; E. Dufresne & R. Beuscart. A resource server for medical training.. Methods Inf Med , Volume 41, Number 2, Pages 177-182, 2002.
Abstract: OBJECTIVES: We have developed a RESOURCE SERVER to collect and store various elements used by a professor during his lecture. METHODS: The server manages four types of objects: ELEMENTS, RESOURCES (set of elements referring to a given topic), INDEXES (to organize the resources for further search and use), and USERS (to identify providers, users, and access rights). If an ELEMENT s modified, the RESOURCE is automatically updated. RESULTS: An example (preparation of an anatomy lecture) explains how the RESOURCE SERVER works in three steps: organization of the training material, indexing, and retrieval. CONCLUSIONS: The RESOURCE SERVER will help instructors develop, update and share pedagogic resources for supporting their training courses, lessons and conferences. Moreover, these techniques, based on Internet technologies for easy handling of and access to these resources, allow local and distant access. Within the general framework of the French-speaking Virtual Medical University, the RESOURCE SERVER will represent an important link between data collection and its use in intelligent pedagogic training.
BibTeX: @article{Brunetaud2002, author = {J. M. Brunetaud and S. Darmoni and N. Souf and E. Dufresne and R. Beuscart}, title = {A resource server for medical training.}, journal = {Methods Inf Med}, year = {2002}, volume = {41}, number = {2}, pages = {177--182} }
1 Publication internationale Stéfan Darmoni; Benoit Thirion; Sylvie Platel; Magsly Douyère; Philippe Mourouga & Jean-Philippe Leroy. CISMeF-patient: a French counterpart to MEDLINEplus.. J Med Libr Assoc , Apr, Volume 90, Number 2, Pages 248-253, 2002.
BibTeX: @article{Darmoni2002, author = {Stéfan Darmoni and Benoit Thirion and Sylvie Platel and Magsly Douyère and Philippe Mourouga and Jean-Philippe Leroy}, title = {CISMeF-patient: a French counterpart to MEDLINEplus.}, month = {Apr}, journal = {J Med Libr Assoc}, year = {2002}, volume = {90}, number = {2}, pages = {248--253}, url = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=100773} }
1 Publication internationale Stefan J Darmoni; Francis Roussel; Jacques Benichou; Benoit Thirion & Nicole Pinhas. Reading factor: a new bibliometric criterion for managing digital libraries.. J Med Libr Assoc , Jul, Volume 90, Number 3, Pages 323-327, 2002.
BibTeX: @article{Darmoni2002b, author = {Stefan J Darmoni and Francis Roussel and Jacques Benichou and Benoit Thirion and Nicole Pinhas}, title = {Reading factor: a new bibliometric criterion for managing digital libraries.}, month = {Jul}, journal = {J Med Libr Assoc}, year = {2002}, volume = {90}, number = {3}, pages = {323--327}, url = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=116406} }
1 Publication internationale Thirion B, Robu I.. Too many discussion lists for health sciences librarians?. EAHIL Newsletter to European Health Librarians , Volume 58, Pages 10-11, 2002.
BibTeX: @article{Thirion2002a, author = {Thirion B, Robu I.}, title = {Too many discussion lists for health sciences librarians?}, journal = {EAHIL Newsletter to European Health Librarians}, year = {2002}, volume = {58}, pages = {10-11}, url = {http://www.eahil.net/newsletter/58/feb2002.pdf} }
2 Publication nationale Darmoni, SJ, MA. Mayer, C. Thomeczek,, G. Eysenbach.. Qualité de l?information : le projet MedCIRCLE.. Revue du Praticien - Médecine Générale , Mai, Volume 16, Number 576, Pages 851-852, 2002.
BibTeX: @article{SJ.2002, author = {Darmoni, SJ, MA. Mayer, C. Thomeczek,, G. Eysenbach.}, title = {Qualité de l?information : le projet MedCIRCLE.}, month = {Mai}, journal = {Revue du Praticien - Médecine Générale}, year = {2002}, volume = {16}, number = {576}, pages = {851-852} }
2 Publication nationale Gehanno, JF. L'Internet, facteur de changement des pratiques en santé au travail ?. Archives des Maladies Professionnelles , Volume 63, Number 3-4, Pages 261-267, 2002.
BibTeX: @article{Gehanno2002b, author = {Gehanno, JF}, title = {L'Internet, facteur de changement des pratiques en santé au travail ?}, journal = {Archives des Maladies Professionnelles}, year = {2002}, volume = {63}, number = {3-4}, pages = {261-267}, url = {http://www.em-consulte.com/article/72546} }
2 Publication nationale MA. Mayer, SJ. Darmoni, M. Fiene, G. Eysenbach, R. Sarrias, C. Köhler, Thomas R. Roth-Berghofer, M. Gelabert.. Información de Calidad en Internet: proyecto MedCIRCLE.. Informed 2002 IX Congreso Nacional de Informática Médica, Valencia, Nov, 2002.
BibTeX: @inproceedings{MA.2002, author = {MA. Mayer, SJ. Darmoni, M. Fiene, G. Eysenbach, R. Sarrias, C. Köhler, Thomas R. Roth-Berghofer, M. Gelabert.}, title = {Información de Calidad en Internet: proyecto MedCIRCLE.}, booktitle = {Informed 2002 IX Congreso Nacional de Informática Médica}, address = {Valencia}, month = {Nov}, year = {2002}, url = {http://wma.comb.es/Upload/Documents/MedCIRCLE_Informed2002.pdf} }
2 Publication nationale Nicolas, D; Boulard, P; Boitel, L; Muller, F & Gehanno, JF. Internet et services médicaux interentreprises : bilan d'une enquête sur 287 Services interentreprises de Médecine du travail.. Archives des Maladies Professionnelles , Volume 63, Number 3-4, Pages 261-267, 2002.
BibTeX: @article{Nicolas2002a, author = {Nicolas, D and Boulard, P and Boitel, L and Muller, F and Gehanno, JF}, title = {Internet et services médicaux interentreprises : bilan d'une enquête sur 287 Services interentreprises de Médecine du travail.}, journal = {Archives des Maladies Professionnelles}, year = {2002}, volume = {63}, number = {3-4}, pages = {261-267}, url = {http://www.em-consulte.com/article/72548} }
3 Communication internationale BEUSCART MC, LEROY N, WASCAT C, DARMONI SJ. Usability Study of a Medical Resources Web Site. Methods for User's Behaviour Monitoring.. Human Factors & the Web : Designing and Evaluating for the Web., Nice, France, March, 2002.
Abstract: We present here the usability assessment study of a medical web site dedicated to the Cataloguing and Indexing of French speaking Medical web Sites (http://www.cismef.org). We performed a usability inspection using heuristic evaluation and an empirical usability test using a portable lab. From these results, we draw up a set of recommendations for the re-engineering of the Human Computer Interface (HCI). We conclude on the necessity to integrate usability engineering early enough in the projects lifecycle.
BibTeX: @inproceedings{BEUSCART2002, author = {BEUSCART MC, LEROY N, WASCAT C, DARMONI SJ}, title = {Usability Study of a Medical Resources Web Site}, booktitle = {Methods for User's Behaviour Monitoring.. Human Factors \& the Web : Designing and Evaluating for the Web.}, address = {Nice, France}, month = {March}, year = {2002}, url = {http://psimail.insa-rouen.fr/MnemosNet/psipubli.nsf/cc186bfe393798efc1256cc70057d255/2a695bd953199c66c1256b7a0031f123/$FILE/mcbeuscartzephir%20HFand%20the%20web2002%20.doc} }
3 Communication internationale Marie-Catherine Beuscart-Zéphir; Nicolas Leroy; Omolade Alao & Stefan Darmoni. Usability assessment study of a web site displaying medical resources on line: the CISMeF.. Stud Health Technol Inform , Volume 90, Pages 133-137, 2002.
Abstract: We present here the usability assessment study of a medical web site dedicated to the Cataloguing and Indexing of French speaking Medical web Sites (CISMeF). We performed a usability inspection using heuristic evaluation and an empirical usability test using a portable lab. The results of the heuristic evaluation show usability flaws along guidance, prompting and legibility ergonomic criteria. The usability test confirms this result and gives some more hints about the severity rating of the problems. From these results, we draw up a set of recommendations for the re-engineering of the Human Computer Interface (HCI). We conclude on the necessity to integrate usability engineering early enough in the projects lifecycle.
BibTeX: @article{Beuscart-Zephir2002, author = {Marie-Catherine Beuscart-Zéphir and Nicolas Leroy and Omolade Alao and Stefan Darmoni}, title = {Usability assessment study of a web site displaying medical resources on line: the CISMeF.}, journal = {Stud Health Technol Inform}, year = {2002}, volume = {90}, pages = {133--137} }
3 Communication internationale C. Köhler, SJ. Darmoni, MA. Mayer, TR. Roth-Berghofer, M. Fiene, G. Eysenbach.. MedCIRCLE - The Collaboration for Internet Rating, Certification, Labelling, and Evaluation of Health Information.. Mednet 2002, World Congress of the Internet in Medicine, Amsterdam, The Netherlands, december, 2002.
BibTeX: @inproceedings{C.2002, author = {C. Köhler, SJ. Darmoni, MA. Mayer, TR. Roth-Berghofer, M. Fiene, G. Eysenbach.}, title = {MedCIRCLE - The Collaboration for Internet Rating, Certification, Labelling, and Evaluation of Health Information.}, booktitle = {Mednet 2002, World Congress of the Internet in Medicine}, address = {Amsterdam, The Netherlands}, month = {december}, year = {2002}, url = {http://www.mednet2002.org/abstracts/display.cfm?id=104184401} }
3 Communication internationale S. J. Darmoni; F. Le Duff; M. Joubert; P. Le Beux; M. Fieschi; J. Weber & J. Benichou. A preliminary study to assess a French code of ethics for health teaching resources on the Internet.. Stud Health Technol Inform , Volume 90, Pages 621-626, 2002.
Abstract: BACKGROUND: Constant assessment of the quality of health information on the Internet is an absolute necessity as peer review is often lacking in this media. OBJECTIVE: To develop a simple and easy French Code of Ethics, which will enable medical students to judge quality of health information in teaching material available on the Internet. DESIGN: Three medical informaticians selected ten criteria from previously established codes of ethics from Europe and the USA. This instrument was tested on a sample of 30 health Internet teaching resources. RESULTS: For the panel of experts, chance corrected inter-observer agreement (kappa) for quality rating ranged from k = -0.19 and k = 0.33, demonstrating poor agreement among the raters. CONCLUSION: If negative results of this preliminary study are confirmed by further research, this finding may detrimentally affect projects in Europe to accredit or certify Internet health resources.
BibTeX: @article{Darmoni2002a, author = {S. J. Darmoni and F. Le Duff and M. Joubert and P. Le Beux and M. Fieschi and J. Weber and J. Benichou}, title = {A preliminary study to assess a French code of ethics for health teaching resources on the Internet.}, journal = {Stud Health Technol Inform}, year = {2002}, volume = {90}, pages = {621--626} }
3 Communication internationale S. J. Darmoni; F. Le Duff; M. Joubert; P. Le Beux; M. Fieschi; J. Weber & J. Benichou. Assessment of a French code of ethics for health teaching resources on the Internet. (Poster). Proc. AMIA Symp., Pages 1017, 2002.
Abstract: BACKGROUND: Constant assessment of the quality of health information on the Internet is an absolute necessity as peer review is often lacking in this media. OBJECTIVE: To develop a simple and easy French Code of Ethics, which will enable medical students to judge quality of health information in teaching material available on the Internet. DESIGN: Three medical informaticians selected ten criteria from previously established codes of ethics from Europe and the USA. This instrument was tested on a sample of 30 health Internet teaching resources. RESULTS: For the panel of experts, chance corrected inter-observer agreement (kappa) for quality rating ranged from k = -0.19 and k = 0.33, demonstrating poor agreement among the raters. CONCLUSION: If negative results of this preliminary study are confirmed by further research, this finding may detrimentally affect projects in Europe to accredit or certify Internet health resources.
BibTeX: @inproceedings{Darmoni2002c, author = {S. J. Darmoni and F. Le Duff and M. Joubert and P. Le Beux and M. Fieschi and J. Weber and J. Benichou}, title = {Assessment of a French code of ethics for health teaching resources on the Internet. (Poster)}, booktitle = {Proc. AMIA Symp.}, year = {2002}, pages = {1017} }
3 Communication internationale Darmoni, SJ, E. AMSALLEM, MC. HAUGH, M. DOUYERE, B. THIRION, J. WEBER, JP. BOISSEL.. Indication du niveau preuve : critère de qualité du contenu de l?information de santé sur l?Internet.. JFIM, Québec, Canada, Pages 245-254, 2002.
BibTeX: @inproceedings{SJ.2002a, author = {Darmoni, SJ, E. AMSALLEM, MC. HAUGH, M. DOUYERE, B. THIRION, J. WEBER, JP. BOISSEL.}, title = {Indication du niveau preuve : critère de qualité du contenu de l?information de santé sur l?Internet.}, booktitle = {JFIM}, address = {Québec, Canada}, year = {2002}, pages = {245-254} }
3 Communication internationale Gehanno, JF.. Use of Internet Among Occupational Health Practitioners in France.. 6th International Conference of the Scientific Committee on Education and Training in Occupational Health, ICOH, Baltimore, USA, October, 2002.
BibTeX: @inproceedings{Gehanno2002a, author = {Gehanno, JF.}, title = {Use of Internet Among Occupational Health Practitioners in France.}, booktitle = {6th International Conference of the Scientific Committee on Education and Training in Occupational Health, ICOH}, address = {Baltimore, USA}, month = {October}, year = {2002} }
3 Communication internationale GRABAR N., ZWEIGENBAUM P., SOUALMIA LF., Darmoni SJ.. A Study of the Adequacy of User and Indexing Vocabularies in Natural Language Queries to a MeSH-Indexed Health Gateway.. Proc AMIA Symp., Pages 1029, 2002.
BibTeX: @inproceedings{GRABAR2002a, author = {GRABAR N., ZWEIGENBAUM P., SOUALMIA LF., Darmoni SJ.}, title = {A Study of the Adequacy of User and Indexing Vocabularies in Natural Language Queries to a MeSH-Indexed Health Gateway.}, booktitle = {Proc AMIA Symp.}, year = {2002}, pages = {1029}, url = {http://estime.spim.jussieu.fr/~pz/FTPapiers/Grabar:AMIA2002.pdf} }
3 Communication internationale Grabar, N.; Zweigenbaum, P.; Soualmia, L. & Darmoni, S. J.. Les utilisateurs de Doc'CISMeF peuventils trouver ce qu'ils cherchent? Une étude de l'adéquation du vocabulaire des requêtes des utilisateurs au MeSH. JFIM, Québec Canada, Mai, Pages 158-169, JFIM, 2002.
BibTeX: @inproceedings{Grabar2002, author = {Grabar, N. and Zweigenbaum, P. and Soualmia, L. and Darmoni, S. J.}, title = {Les utilisateurs de Doc'CISMeF peuventils trouver ce qu'ils cherchent? Une étude de l'adéquation du vocabulaire des requêtes des utilisateurs au MeSH}, booktitle = {JFIM}, address = {Québec Canada}, month = {Mai}, publisher = {JFIM}, year = {2002}, pages = {158-169} }
3 Communication internationale J. WEBER, Darmoni, SJ.. French Medical Virtual University.. The 10th Ottawa Conference on Medical Education, Ottawa, Canada, July, 2002.
BibTeX: @inproceedings{J.2002, author = {J. WEBER, Darmoni, SJ.}, title = {French Medical Virtual University.}, booktitle = {The 10th Ottawa Conference on Medical Education}, address = {Ottawa, Canada}, month = {July}, year = {2002} }
3 Communication internationale SOUALMIA LF; DARMONI SJ; DOUYERE M; LE DUFF F; THELWALL M. Web Impact Factor: un outil bibliométrique appliqué aux sites Web des facultés de médecine et des CHU français. JFIM, Québec, Canada, Mai, Pages 496, 2002.
BibTeX: @inproceedings{M2002, author = {SOUALMIA LF; DARMONI SJ; DOUYERE M; LE DUFF F; THELWALL M}, title = {Web Impact Factor: un outil bibliométrique appliqué aux sites Web des facultés de médecine et des CHU français}, booktitle = {JFIM}, address = {Québec, Canada}, month = {Mai}, year = {2002}, pages = {496} }
3 Communication internationale Mary V., Pouliquen B., Le Duff F, Darmoni SJ., Segui A., Le Beux P.. Indexation automatique conceptuelle de thèses pharmaceutiques françaises.. JFIM, Québec, Canada, Mai, 2002.
BibTeX: @inproceedings{Mary2002a, author = {Mary V., Pouliquen B., Le Duff F, Darmoni SJ., Segui A., Le Beux P.}, title = {Indexation automatique conceptuelle de thèses pharmaceutiques françaises.}, booktitle = {JFIM}, address = {Québec, Canada}, month = {Mai}, year = {2002} }
3 Communication internationale Vincent Mary; Bruno Pouliquen; Franck Le Duff; Stefan J Darmoni; Alain Segui & Pierre Le Beux. Automatic conceptual indexing of French pharmaceutical theses.. Stud Health Technol Inform , Volume 90, Pages 388-392, 2002.
Abstract: French pharmaceutical theses are rarely quoted. If the main obstacles originate from language or access barriers, proper indexation could also be blamed. Manually extracted key-words don't necessary come from a structured thesaurus. In the following work, this manual indexing method is compared to an automated one, "Nomindex", based on UMLS. The automated method is improved by the addition of a relevance scoring system. The first indexing step consists of downloading, adapting and indexing theses in electronic format. Results will then be analyzed and sorted by relevance, through the comparison of classic statistical indices (noise, silence and relevance). It was assumed that the manually obtained key-words were always relevant. The silence of manual indexing is nevertheless high: seven new key-words are proposed by Nomindex, which results are mixed (10% of silence, but 50% of noise). These results are promising on the first experiment on pharmaceutical document without lexicon improvement. The indexing, if it is currently insufficient for a real life use, could easily be improved by specific updates of the lexicon.
BibTeX: @article{Mary2002, author = {Vincent Mary and Bruno Pouliquen and Franck Le Duff and Stefan J Darmoni and Alain Segui and Pierre Le Beux}, title = {Automatic conceptual indexing of French pharmaceutical theses.}, journal = {Stud Health Technol Inform}, year = {2002}, volume = {90}, pages = {388--392}, url = {http://langtech.jrc.it/Documents/MIE-02_Vincent.pdf} }
3 Communication internationale Lina Fatima Soualmia; Stéfan Jacques Darmoni; Franck Le Duff; Magaly Douyere & Maurice Thelwall. Web impact factor: a bibliometric criterion applied to medical informatics societies' web sites.. Stud Health Technol Inform , Volume 90, Pages 178-183, 2002.
Abstract: Several methods are available to evaluate and compare medical journals. The most popular is the journal Impact Factor, derived from averaging counts of citations to articles. Ingwersen adapted this method to assess the attractiveness of Web sites, defining the external Web Impact Factor (WIF) to be the number of external pages containing a link to a given Web site. This paper applies the WIF to 43 medical informatics societies' Web sites using advanced search engine queries to obtain the necessary link counts. The WIF was compared to the number of publications available in the Medline bibliographic database in medical informatics in these 43 countries. Between these two metrics, the observed Pearson correlation was 0.952 (p < 0.01) and the Spearman rank correlation was 0.548 (p < 0.01) showing in both cases a positive and strong significant correlation. The WIF of medicalm informatics society's Web site is statistically related to national productivity and discrepancies can be used to indicate countries where there are either weak medical informatics associations, or ones that do not make optimal use of the Web.
BibTeX: @article{Soualmia2002, author = {Lina Fatima Soualmia and Stéfan Jacques Darmoni and Franck Le Duff and Magaly Douyere and Maurice Thelwall}, title = {Web impact factor: a bibliometric criterion applied to medical informatics societies' web sites.}, journal = {Stud Health Technol Inform}, year = {2002}, volume = {90}, pages = {178--183} }
3 Communication internationale Benoit Thirion; Stéfan Jacques Darmoni; Magaly Douyere & Jean-Philippe Leroy. Webmastering in academic institutions: a new job opportunity.. Stud Health Technol Inform , Volume 90, Pages 832-837, 2002.
Abstract: In cyberspace, the health webmaster could be regarded as a virtual editor-in-chief, in charge of content and design. In this circumstance, he/she must follow quality criteria when building any resource. At the Rouen University Hospital (RUH), we have chosen "Net Scoring" as an effective tool to aid the design of a quality Web site. "Net Scoring" contains a list of 49 criteria which fall into eight categories: credibility, content, links, design, interactivity, quantitative aspects, ethics, and accessibility. The webmaster is the key element of the editorial board process. He/she must regularly monitor the Web site in order to retrieve information about whether the site is used and by whom: the method most commonly used is log analysis. At the RUH, an average of 9,000 unique machines visit our Web site each working day. Webmaster is a new job opportunity in academic institutions, in particular for medical informaticians and medical librarians both whom are information science professionals.
BibTeX: @article{Thirion2002, author = {Benoit Thirion and Stéfan Jacques Darmoni and Magaly Douyere and Jean-Philippe Leroy}, title = {Webmastering in academic institutions: a new job opportunity.}, journal = {Stud Health Technol Inform}, year = {2002}, volume = {90}, pages = {832--837} }
3 Communication internationale P. Zweigenbaum; S. J. Darmoni; N. Grabar; M. Douyère & J. Benichou. An assessment of the visibility of MeSH-indexed medical web catalogs through search engines.. Proc AMIA Symp , Pages 954-958, 2002.
Abstract: Manually indexed Internet health catalogs such as CliniWeb or CISMeF provide resources for retrieving high-quality health information. Users of these quality-controlled subject gateways are most often referred to them by general search engines such as Google, AltaVista, etc. This raises several questions, among which the following: what is the relative visibility of medical Internet catalogs through search engines? This study addresses this issue by measuring and comparing the visibility of six major, MeSH-indexed health catalogs through four different search engines (AltaVista, Google, Lycos, Northern Light) in two languages (English and French). Over half a million queries were sent to the search engines; for most of these search engines, according to our measures at the time the queries were sent, the most visible catalog for English MeSH terms was CliniWeb and the most visible one for French MeSH terms was CISMeF.
BibTeX: @article{Zweigenbaum2002, author = {P. Zweigenbaum and S. J. Darmoni and N. Grabar and M. Douyère and J. Benichou}, title = {An assessment of the visibility of MeSH-indexed medical web catalogs through search engines.}, journal = {Proc AMIA Symp}, year = {2002}, pages = {954--958} }
4 Communication nationale A. Hamon, SJ. Darmoni, F. Le Duff, JC. Dufour, M. Joubert, P. Le Beux, M. Fieschi, J. Weber, J. Bénichou.. Evaluation d'une grille de critères de qualité de ressources pédagogiques disponibles sur l?Internet.. Internet et Pédagogie Médicale (IPM), Lille, France, 2002.
BibTeX: @inproceedings{A.2002, author = {A. Hamon, SJ. Darmoni, F. Le Duff, JC. Dufour, M. Joubert, P. Le Beux, M. Fieschi, J. Weber, J. Bénichou.}, title = {Evaluation d'une grille de critères de qualité de ressources pédagogiques disponibles sur l?Internet.}, booktitle = {Internet et Pédagogie Médicale (IPM)}, address = {Lille, France}, year = {2002}, url = {http://w3med.univ-lille2.fr/ipm2002/programme/resumes.pdf} }
4 Communication nationale B. Dahamna, LF. Soualmia, B. Pourchez, E. Pichon, B. Thirion, J. Weber, SJ. Darmoni.. Codage MESH des questions d?internat : intérêt pour Doc?CISMeF, catalogue de ressources pédagogiques. Internet et Pédagogie Médicale (IPM), Lille, France, 2002.
BibTeX: @inproceedings{B.2002, author = {B. Dahamna, LF. Soualmia, B. Pourchez, E. Pichon, B. Thirion, J. Weber, SJ. Darmoni.}, title = {Codage MESH des questions d?internat : intérêt pour Doc?CISMeF, catalogue de ressources pédagogiques}, booktitle = {Internet et Pédagogie Médicale (IPM)}, address = {Lille, France}, year = {2002}, url = {http://w3med.univ-lille2.fr/ipm2002/programme/resumes.pdf} }
4 Communication nationale DARMONI SJ, LE DUFF F, JOUBERT M, LE BEUX P, FIESCHI M, WEBER J, BENICHOU J. Evaluation d'un code d'éthique pour l'étudiant en médecine sur l'Internet. Formation médicale et Technologies de l'Information et de la Communication, Informatique et Santé Internet et Pédagogie Médicale (IPM) 2001, Volume 14, Pages 63-72, 2002.
Abstract: Background: An assessment of the quality of health information on the Internet is an absolute necessity because peer review is often lacking in this media. Objective: To develop a simple and easy French code of ethics, which will enable medical students to judge quality of health information in teaching material available on the Internet. Design: Three medical informaticians generated ten criteria from previous codes of ethics from Europe and the USA. This instrument was tested on a sample of 30 health Internet teaching resources. Results: Chance corrected inter-observer agreement (kappa) for the quality rating ranged from k=-0.19 to k=0.33 amongst the expert panel, showing poor agreement among the raters. Conclusion: If the negative results of this study are confirmed by further research, they will affect detrimentally projects in Europe to accredit or certify Internet health resources.
BibTeX: @inproceedings{DARMONI2002z, author = {DARMONI SJ, LE DUFF F, JOUBERT M, LE BEUX P, FIESCHI M, WEBER J, BENICHOU J}, title = {Evaluation d'un code d'éthique pour l'étudiant en médecine sur l'Internet}, booktitle = {Internet et Pédagogie Médicale (IPM) 2001}, journal = {Formation médicale et Technologies de l'Information et de la Communication, Informatique et Santé}, year = {2002}, volume = {14}, pages = {63-72}, url = {http://litismail.insa-rouen.fr/MnemosNet/psipubli.nsf/ce6c2c540f564a2dc125680200361b7c/6fbb0ea481fe4ad9c1256b6c003269ef/$FILE/robustesseFR.doc} }
4 Communication nationale Gehanno, JF.. L'Internet, facteur de changement des pratiques en santé au travail ?. 27eme Congrès National de Médecine et Santé au Travail, Grenoble, France, Juin, 2002.
BibTeX: @inproceedings{Gehanno2002, author = {Gehanno, JF.}, title = {L'Internet, facteur de changement des pratiques en santé au travail ?}, booktitle = {27eme Congrès National de Médecine et Santé au Travail}, address = {Grenoble, France}, month = {Juin}, year = {2002}, url = {http://www.federationsantetravail.org/publications/m23Internet.html} }
4 Communication nationale Gehanno, JF. L'Internet, facteur de changement des pratiques en santé au travail ?. 27eme Congrès National de Médecine et Santé au Travail, Grenoble, France, Juin, 2002.
BibTeX: @inproceedings{Gehanno2002c, author = {Gehanno, JF}, title = {L'Internet, facteur de changement des pratiques en santé au travail ?}, booktitle = {27eme Congrès National de Médecine et Santé au Travail}, address = {Grenoble, France}, month = {Juin}, year = {2002} }
4 Communication nationale J. Weber, SJ. Darmoni, F. Charles, R. Bourru.. Quelle est l'apport des Techniques de l?Information et de la Communication (TIC) à la pédagogie médicale ?. Internet et Pédagogie Médicale (IPM), Lille, France, 2002.
BibTeX: @inproceedings{J.2002a, author = {J. Weber, SJ. Darmoni, F. Charles, R. Bourru.}, title = {Quelle est l'apport des Techniques de l?Information et de la Communication (TIC) à la pédagogie médicale ?}, booktitle = {Internet et Pédagogie Médicale (IPM)}, address = {Lille, France}, year = {2002}, url = {http://w3med.univ-lille2.fr/ipm2002/programme/resumes.pdf} }
4 Communication nationale JM. Brunetaud, SJ. Darmoni, RENARD JM, F. Le Duff, P. Le Beux, T. FERRE, R. Beuscart.. Le rôle d?une plate-forme de télé-enseignement au sein de l?Université Médicale Virtuelle Francophone.. ormation médicale et Technologies de l'Information et de la Communication, Informatique et Santé Internet et Pédagogie Médicale (IPM) 2001, Volume 14, Pages 13-20, 2002.
BibTeX: @inproceedings{JM.2002, author = {JM. Brunetaud, SJ. Darmoni, RENARD JM, F. Le Duff, P. Le Beux, T. FERRE, R. Beuscart.}, title = {Le rôle d?une plate-forme de télé-enseignement au sein de l?Université Médicale Virtuelle Francophone.}, booktitle = {Internet et Pédagogie Médicale (IPM) 2001}, journal = {ormation médicale et Technologies de l'Information et de la Communication, Informatique et Santé}, year = {2002}, volume = {14}, pages = {13-20} }
4 Communication nationale LF. SOUALMIA, C. BARRY-GREBOVAL, H. ABDULRAB, Darmoni, SJ.. Modélisation et représentation des connaissances dans un catalogue de santé.. Treizièmes Journées Francophones d?Ingénierie des Connaissances, Rouen, France, mai, 2002.
BibTeX: @inproceedings{LF.2002, author = {LF. SOUALMIA, C. BARRY-GREBOVAL, H. ABDULRAB, Darmoni, SJ.}, title = {Modélisation et représentation des connaissances dans un catalogue de santé.}, booktitle = {Treizièmes Journées Francophones d?Ingénierie des Connaissances}, address = {Rouen, France}, month = {mai}, year = {2002} }
4 Communication nationale LF. SOUALMIA, M. DOUYERE, JP. LEROY, B. THIRION, Darmoni, SJ.. Modélisation de l'information dans un catalogue de santé sur l'Internet.. Journée "Ingénierie des connaissances et santé", Paris, France, 28 janvier, 2002.
BibTeX: @inproceedings{LF.2002a, author = {LF. SOUALMIA, M. DOUYERE, JP. LEROY, B. THIRION, Darmoni, SJ.}, title = {Modélisation de l'information dans un catalogue de santé sur l'Internet.}, booktitle = {Journée "Ingénierie des connaissances et santé"}, address = {Paris, France}, month = {28 janvier}, year = {2002} }
4 Communication nationale M. Cuggia, G. Soula, SJ. Darmoni, F. Mougin, P. Le Beux.. Indexation audiovisuelle de l?UMVF : vers une approche web sémantique.. Internet et Pédagogie Médicale (IPM), Lille, France, 2002.
BibTeX: @inproceedings{M.2002, author = {M. Cuggia, G. Soula, SJ. Darmoni, F. Mougin, P. Le Beux.}, title = {Indexation audiovisuelle de l?UMVF : vers une approche web sémantique.}, booktitle = {Internet et Pédagogie Médicale (IPM)}, address = {Lille, France}, year = {2002}, url = {http://w3med.univ-lille2.fr/ipm2002/programme/resumes.pdf} }
4 Communication nationale MASSARI P, DARMONI SJ, FUSS J, STREIFF J, ROUSSEL F.. Communication du dossier électronique du patient entre établissements.. Télémédecine et e-santé, Informatique et Santé Journée AIM 2001, Volume 13, Pages 11-16, Springer-Verlag France, 2002.
Abstract: The communication of electronic patient records through telecommunication networks to healthcare professionals between different hospitals and also between hospitals and family physicians is one of the main challenges for this decade. In the year 2000, this approach proved to be successful for communication between three hospitals in Rouen (France) when used for 966 electronic patient records which contained, on average, 23 reports in psychiatry, 48 in gastroenterology, and 83 in pneumology. We used a three layer architecture, and security and confidentiality obligations were fulfilled. This first experience will be extended to communication between hospitals and family physicians in the second semester of 2001. A national health patient identification would facilitate and accelerate the communication of electronic patient records in France.
BibTeX: @inproceedings{MASSARI2002, author = {MASSARI P, DARMONI SJ, FUSS J, STREIFF J, ROUSSEL F.}, title = {Communication du dossier électronique du patient entre établissements.}, booktitle = {Journée AIM 2001}, journal = {Télémédecine et e-santé, Informatique et Santé}, publisher = {Springer-Verlag France}, year = {2002}, volume = {13}, pages = {11-16}, url = {http://litismail.insa-rouen.fr/MnemosNet/psipubli.nsf/6584347b5ce03e72c1256b0f007003f0/76659e02f6f8fe86c1256a8b0049864b/$FILE/Article%20AIM_2001_vf.doc} }
4 Communication nationale Nicolas D, Boulard P, Boitel L, Muller F, Gehanno JF. Internet et services médicaux interentreprises : bilan d'une enquête sur 287 Services interentreprises de Médecine du travail.. 27eme Congrès National de Médecine et Santé au Travail, Grenoble, France, Juin, 2002.
BibTeX: @inproceedings{Nicolas2002, author = {Nicolas D, Boulard P, Boitel L, Muller F, Gehanno JF}, title = {Internet et services médicaux interentreprises : bilan d'une enquête sur 287 Services interentreprises de Médecine du travail.}, booktitle = {27eme Congrès National de Médecine et Santé au Travail}, address = {Grenoble, France}, month = {Juin}, year = {2002}, url = {http://www.federationsantetravail.org/publications/m23Internet.html} }
4 Communication nationale P. Le Beux, B. Kamendje, JM. Brunetaud, AC. Benhamou, SJ. Darmoni, P. Gillois, D. Pagonis, G. Soula, M. Spector, J. Weber.. L?Université médicale virtuelle francophone : les réalisations.. Internet et Pédagogie Médicale (IPM), Lille, France, 2002.
BibTeX: @inproceedings{P.2002, author = {P. Le Beux, B. Kamendje, JM. Brunetaud, AC. Benhamou, SJ. Darmoni, P. Gillois, D. Pagonis, G. Soula, M. Spector, J. Weber.}, title = {L?Université médicale virtuelle francophone : les réalisations.}, booktitle = {Internet et Pédagogie Médicale (IPM)}, address = {Lille, France}, year = {2002}, url = {http://w3med.univ-lille2.fr/ipm2002/programme/resumes.pdf} }
4 Communication nationale P. Le Beux, F. Le Duff, G. Soula,, JM. Brunetaud, SJ. Darmoni, P. Gillois, D. Pagonis, M. Spector, M. Fieschi, R. Beuscart, P. Degoulet, AC. Benhamou, A. Bonnin, J. Weber. Définition des spécifications du projet de l'Université Médicale Virtuelle Française. Télémédecine et e-santé, Informatique et Santé Journée AIM 2001, Paris, France, Volume 13, Pages 105-112, 2002.
BibTeX: @inproceedings{P.2002b, author = {P. Le Beux, F. Le Duff, G. Soula,, JM. Brunetaud, SJ. Darmoni, P. Gillois, D. Pagonis, M. Spector, M. Fieschi, R. Beuscart, P. Degoulet, AC. Benhamou, A. Bonnin, J. Weber}, title = {Définition des spécifications du projet de l'Université Médicale Virtuelle Française}, booktitle = {Journée AIM 2001}, address = {Paris, France}, journal = {Télémédecine et e-santé, Informatique et Santé}, year = {2002}, volume = {13}, pages = {105-112} }
4 Communication nationale P. Le Beux, F. Le Duff, J. Weber, SJ. Darmoni, AC. Benhamou.. Intégration des Nouvelles Technologies Educatives dans l?Université Médicale Virtuelle Francophone.. Formation médicale et Technologies de l'Information et de la Communication, Informatique et Santé Internet et Pédagogie Médicale (IPM) 2001, Volume 14, Pages 3-12, Springer-Verlag France, 2002.
BibTeX: @inproceedings{P.2002c, author = {P. Le Beux, F. Le Duff, J. Weber, SJ. Darmoni, AC. Benhamou.}, title = {Intégration des Nouvelles Technologies Educatives dans l?Université Médicale Virtuelle Francophone.}, booktitle = {Internet et Pédagogie Médicale (IPM) 2001}, journal = {Formation médicale et Technologies de l'Information et de la Communication, Informatique et Santé}, publisher = {Springer-Verlag France}, year = {2002}, volume = {14}, pages = {3-12} }
4 Communication nationale P. ZWEIGENBAUM, N. GRABAR, Darmoni, SJ.. Projection de requêtes en langue naturelle sur les termes du MeSH : l?apport de connaissances.. Formation médicale et Technologies de l'Information et de la Communication, Informatique et Santé Internet et Pédagogie Médicale (IPM) 2001, Volume 14, Pages 55-62, 2002.
BibTeX: @inproceedings{P.2002d, author = {P. ZWEIGENBAUM, N. GRABAR, Darmoni, SJ.}, title = {Projection de requêtes en langue naturelle sur les termes du MeSH : l?apport de connaissances.}, booktitle = {Internet et Pédagogie Médicale (IPM) 2001}, journal = {Formation médicale et Technologies de l'Information et de la Communication, Informatique et Santé}, year = {2002}, volume = {14}, pages = {55-62} }
4 Communication nationale P. Zweigenbaum, SJ. Darmoni, N. Grabar, M. Douyère, J. Bénichou.. Visibilité relative de catalogues web médicaux à travers des moteurs de recherche.. Internet et Pédagogie Médicale (IPM), Lille, France, 2002.
BibTeX: @inproceedings{P.2002a, author = {P. Zweigenbaum, SJ. Darmoni, N. Grabar, M. Douyère, J. Bénichou.}, title = {Visibilité relative de catalogues web médicaux à travers des moteurs de recherche.}, booktitle = {Internet et Pédagogie Médicale (IPM)}, address = {Lille, France}, year = {2002}, url = {http://w3med.univ-lille2.fr/ipm2002/programme/resumes.pdf} }
4 Communication nationale SJ. Darmoni SJ., MA. Mayer, C. Thomeczek, G. Eysenbach.. MEDCIRCLE : un projet européen pour évaluer la qualité de l?information de santé. Internet et Pédagogie Médicale (IPM), Lille, France, 2002.
BibTeX: @inproceedings{SJ.2002b, author = {SJ. Darmoni SJ., MA. Mayer, C. Thomeczek, G. Eysenbach.}, title = {MEDCIRCLE : un projet européen pour évaluer la qualité de l?information de santé}, booktitle = {Internet et Pédagogie Médicale (IPM)}, address = {Lille, France}, year = {2002}, url = {http://w3med.univ-lille2.fr/ipm2002/programme/resumes.pdf} }
4 Communication nationale SJ. Darmoni, F. Le Duff, JM. Brunetaud, L. SIBERT, A. BURGUN, D. Pagonis, s. ALLORGE, P. Le Beux, R. Beuscart, J. Weber.. Apprentissage par problème assisté par ordinateur : étude de faisabilité.. Formation médicale et Technologies de l'Information et de la Communication, Informatique et Santé Internet et Pédagogie Médicale (IPM) 2001, Volume 14, Pages 45-54, Springer-Verlag France, 2002.
BibTeX: @inproceedings{SJ.2002c, author = {SJ. Darmoni, F. Le Duff, JM. Brunetaud, L. SIBERT, A. BURGUN, D. Pagonis, s. ALLORGE, P. Le Beux, R. Beuscart, J. Weber.}, title = {Apprentissage par problème assisté par ordinateur : étude de faisabilité.}, booktitle = {Internet et Pédagogie Médicale (IPM) 2001}, journal = {Formation médicale et Technologies de l'Information et de la Communication, Informatique et Santé}, publisher = {Springer-Verlag France}, year = {2002}, volume = {14}, pages = {45-54} }
2001 1 Publication internationale B.THIRION, JP. LEROY, F. BAUDIC, M. DOUYERE, J. PIOT, Darmoni, SJ.. SDI selecting, describing and indexing: did you mean automatically?. Knowledge Organization. , Volume 28, 2001.
BibTeX: @article{B.THIRION2001, author = {B.THIRION, JP. LEROY, F. BAUDIC, M. DOUYERE, J. PIOT, Darmoni, SJ.}, title = {SDI selecting, describing and indexing: did you mean automatically?}, journal = {Knowledge Organization.}, year = {2001}, volume = {28} }
1 Publication internationale S. J. Darmoni; M. C. Haugh; B. Lukacs & J. P. Boissel. Quality of health information about depression on internet. Level of evidence should be gold standard.. BMJ , Jun, Volume 322, Number 7298, Pages 1367, 2001.
BibTeX: @article{Darmoni2001d, author = {S. J. Darmoni and M. C. Haugh and B. Lukacs and J. P. Boissel}, title = {Quality of health information about depression on internet. Level of evidence should be gold standard.}, month = {Jun}, journal = {BMJ}, year = {2001}, volume = {322}, number = {7298}, pages = {1367}, url = {http://www.bmj.com/cgi/content/full/322/7298/1366#resp1} }
1 Publication internationale S. J. Darmoni; B. Thirion; J. P. Leroy & M. Douyère. The use of Dublin Core metadata in a structured health resource guide on the internet.. Bull Med Libr Assoc , Jul, Volume 89, Number 3, Pages 297-301, 2001.
BibTeX: @article{Darmoni2001c, author = {S. J. Darmoni and B. Thirion and J. P. Leroy and M. Douyère}, title = {The use of Dublin Core metadata in a structured health resource guide on the internet.}, month = {Jul}, journal = {Bull Med Libr Assoc}, year = {2001}, volume = {89}, number = {3}, pages = {297--301}, url = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=34564} }
1 Publication internationale S. J. Darmoni; B. Thirion; J. P. Leroyt; M. Douyère; B. Lacoste; C. Godard; I. Rigolle; M. Brisou; S. Videau; E. Goupyt; J. Piott; M. Quéré; S. Ouazir & H. Abdulrab. A search tool based on 'encapsulated' MeSH thesaurus to retrieve quality health resources on the internet.. Med Inform Internet Med , Volume 26, Number 3, Pages 165-178, 2001.
Abstract: In the year 2001, the Internet has become a major source of health information for the health professional and the Netizen. The objective of Doc' CISMeF (D'C) was to create a powerful generic search tool based on a structured information model which 'encapsulates' the MeSH thesaurus to index and retrieve quality health resources on the Internet. To index resources, D'C uses four sections in its information model: 'meta-term', keyword, subheading, and resource type. Two search options are available: simple and advanced. The simple search requires the end-user to input a single term or expression. If this term belongs to the D'C information structure model, it will be exploded. If not, a full-text search is performed. In the advanced search, complex searches are possible combining Boolean operators with meta-terms, keywords, subheadings and resource types. D'C uses two standard tools for organising information: the MeSH thesaurus and the Dublin Core metadata format. Resources included in D'C are described according to the following elements: title, author or creator, subject and keywords, description, publishers, date, resource type, format, identifier, and language.
BibTeX: @article{Darmoni2001, author = {S. J. Darmoni and B. Thirion and J. P. Leroyt and M. Douyère and B. Lacoste and C. Godard and I. Rigolle and M. Brisou and S. Videau and E. Goupyt and J. Piott and M. Quéré and S. Ouazir and H. Abdulrab}, title = {A search tool based on 'encapsulated' MeSH thesaurus to retrieve quality health resources on the internet.}, journal = {Med Inform Internet Med}, year = {2001}, volume = {26}, number = {3}, pages = {165--178} }
1 Publication internationale F. Roussel; S. J. Darmoni & B. Thirion. Cost effectiveness of a medical digital library.. Med Inform Internet Med , Volume 26, Number 4, Pages 325-330, 2001.
Abstract: The rapid increase in the price of electronic journals has made the optimization of collection management an urgent task. As there is currently no standard procedure for the evaluation of this problem, we applied the Reading Factor (RF), an electronically computed indicator used for consultation of individual articles. The aim of our study was to assess the cost effective impact of modifications in our digital library (i.e. change of access from the Intranet to the Internet or change in editorial policy). The digital OVID library at Rouen University Hospital continues to be cost-effective in comparison with the interlibrary loan costs. Moreover, when electronic versions are offered alongside a limited amount of interlibrary loans, a reduction in library costs was observed.
BibTeX: @article{Roussel2001, author = {F. Roussel and S. J. Darmoni and B. Thirion}, title = {Cost effectiveness of a medical digital library.}, journal = {Med Inform Internet Med}, year = {2001}, volume = {26}, number = {4}, pages = {325--330}, url = {http://litismail.insa-rouen.fr/MnemosNet/psipubli.nsf/ce6c2c540f564a2dc125680200361b7c/bd3e3f5dbb12efb0c1256b6c0030d248/$FILE/CAVLMEDINF.doc} }
2 Publication nationale B. Thirion, JP. LEROY, F. BAUDIC, M. DOUYERE, J. PIOT, Darmoni, SJ.. Sélection, description, indexation : vous avez dit automatique ?. L'indexation à l'ère d'Internet., Lyon, France, Pages 37-32, ISKO-France, 2001.
BibTeX: @inproceedings{B.2001a, author = {B. Thirion, JP. LEROY, F. BAUDIC, M. DOUYERE, J. PIOT, Darmoni, SJ.}, title = {Sélection, description, indexation : vous avez dit automatique ?}, booktitle = {L'indexation à l'ère d'Internet.}, address = {Lyon, France}, publisher = {ISKO-France}, year = {2001}, pages = {37-32} }
2 Publication nationale B. Thirion, S. Platel, M. Douyère, P. Mourouga, S. Ouazir, J. Piot, S. Darmoni.. CISMeF et la Ligue Nationale contre le Cancer : ensemble pour les patients.. Revue du Praticien - Médecine Générale , Septembre, Volume 15, Number 544, Pages 1455-6, 2001.
BibTeX: @article{B.2001, author = {B. Thirion, S. Platel, M. Douyère, P. Mourouga, S. Ouazir, J. Piot, S. Darmoni.}, title = {CISMeF et la Ligue Nationale contre le Cancer : ensemble pour les patients.}, month = {Septembre}, journal = {Revue du Praticien - Médecine Générale}, year = {2001}, volume = {15}, number = {544}, pages = {1455-6} }
2 Publication nationale Gehanno, JF; Thirion, B & Caillard, JF. Approche bibliométrique de la veille documentaire en médecine du travail. Archives des Maladies Professionnelles , Volume 62, 2001.
BibTeX: @article{Gehanno2001, author = {Gehanno, JF and Thirion, B and Caillard, JF}, title = {Approche bibliométrique de la veille documentaire en médecine du travail}, journal = {Archives des Maladies Professionnelles}, year = {2001}, volume = {62} }
2 Publication nationale J. DARMONI, B. Lacoste, S. Videau, JP. LEROY, M. DOUYERE, J. PIOT, H. Abdulrab H, B. THIRION.. Doc' CISMeF : Un "Medline" francophone pour les ressources Internet : Un outil de recherche fonde sur le MeSH.. Médecine d'urgence , Volume 23, Number HS, Pages 279-283, 2001.
Abstract: Les ressources disponibles sur l'Internet concernant l'enseignement et la formation dans le domaine de la médecine sont en croissance exponentielle. L'objectif de Doc'CISMeF est de créer un outil de recherche générique fondé sur un modèle d'information qui encapsule le thésaurus MeSH. Pour indexer les ressources de qualité, Doc'CISMeF utilise 4 niveaux hiérarchiques : métaterme, mot-clé, qualificatif et type de ressources. Deux recherches sont possibles dans Doc'CISMeF :- la recherche simple qui permet à l'utilisateur de saisir un terme ou une expression ; si ce terme appartient à notre modèle d'information, il sera explosé, c'est-à-dire que Doc'CESMeF affichera toutes les ressources indexées avec des termes hiérarichiquement inférieurs ; - la recherche avancée permet des requêtes plus complexes, combinant avec des opérateurs booléens, méta-termes, mots-clés , qualificatifs et types de ressources, mais aussi tous les champs de Doc'CISMeF, comme par exemple la cible d'une ressource éducative, notamment le cycle d'études. Doc'CISMeF utilise deux outils standards pour organiser l'information le thésaurus MeSH et le format de données et de méta-données Dublin Core. Les champs de Doc'CISMeF sont: titre, auteur, desciption, site éditeur, date, identifiant, format, langue, mots-clés et type de ressources, institution, ville départemen ou province ou état, pays public concerné, coût, parrainage. Doc'CISMeF est un des outils de recherche qui sera utilisé au sein de la future Université Médicale Virtuelle Francophone.
BibTeX: @article{J.2001, author = {J. DARMONI, B. Lacoste, S. Videau, JP. LEROY, M. DOUYERE, J. PIOT, H. Abdulrab H, B. THIRION.}, title = {Doc' CISMeF : Un "Medline" francophone pour les ressources Internet : Un outil de recherche fonde sur le MeSH.}, journal = {Médecine d'urgence}, year = {2001}, volume = {23}, number = {HS}, pages = {279-283} }
2 Publication nationale SJ Darmoni, M. Haugh, B. Lukacs, JP Boissel.. Un nouveau critère de qualité du contenu de santé : le niveau de preuve .. Revue du Praticien - Médecine Générale , Number 529, Pages 479-80, 2001.
BibTeX: @article{SJ2001, author = {SJ Darmoni, M. Haugh, B. Lukacs, JP Boissel.}, title = {Un nouveau critère de qualité du contenu de santé : le niveau de preuve .}, journal = {Revue du Praticien - Médecine Générale}, year = {2001}, number = {529}, pages = {479-80} }
2 Publication nationale Stéfan Jacques DARMONI, Jean-Philippe LEROY, Magaly DOUYÈRE, Josette PIOT, Saïda OUAZIR, Benoît LACOSTE, Christophe GODARD, Isabelle RIGOLLE, Martial BRISOU, Stéphane VIDEAU, Myriam QUÉRÉ, Eric GOUPY, Habib ABDULRAB, Benoît THIRION. Doc'CISMeF : un outil de recherche Internet orienté vers l'enseignement et la formation à distance en médecine.. Pédagogie médicale , Août, Volume 2, Number 3, Pages 170-178, 2001.
BibTeX: @article{Stefan2001, author = {Stéfan Jacques DARMONI, Jean-Philippe LEROY, Magaly DOUYÈRE, Josette PIOT, Saïda OUAZIR, Benoît LACOSTE, Christophe GODARD, Isabelle RIGOLLE, Martial BRISOU, Stéphane VIDEAU, Myriam QUÉRÉ, Eric GOUPY, Habib ABDULRAB, Benoît THIRION}, title = {Doc'CISMeF : un outil de recherche Internet orienté vers l'enseignement et la formation à distance en médecine.}, month = {Août}, journal = {Pédagogie médicale}, year = {2001}, volume = {2}, number = {3}, pages = {170-178}, url = {http://www.pedagogie-medicale.org/2-3-darmoni.pdf} }
3 Communication internationale S. J. Darmoni; B. Thirion; J. P. Leroy; M. Douyère; B. Lacoste; C. Godard; I. Rigolle; M. Brisou; S. Videau; E. Goupy; J. Piot; M. Quéré; S. Ouazir & H. Abdulrab. Doc'CISMEF: a search tool based on "encapsulated" MeSH thesaurus.. Medinfo , Volume 10, Number Pt 1, Pages 314-318, 2001.
Abstract: In the year 2000, the Internet became a major source of health information for the health professional and the Netizen. The objective of Doc'CISMeF (D'C) was to create a powerful generic search tool based on an structured information model which â encapsulates' the MeSH thesaurus to index and retrieve quality health resources on the Internet. To index resources, D'C uses four sections in its information model: 'meta-term', keyword, subheading, and resource type. Two search options are available: simple and advanced. The simple search requires the end-user to input a single term or expression. If this term belongs to the D'C information structure model, it will be exploded. If not, a full-text search is performed. In the advanced search, complex searches are possible combining Boolean operators with meta-terms, keywords, subheadings and resource types. D'C uses two standard tools for organising information: the MeSH thesaurus and the Dublin Core metadata format. Resources included in D'C are described according to the following elements: title, author or creator, subject and keywords, description, publisher, date, resource type, format, identifier, and language.
BibTeX: @article{Darmoni2001b, author = {S. J. Darmoni and B. Thirion and J. P. Leroy and M. Douyère and B. Lacoste and C. Godard and I. Rigolle and M. Brisou and S. Videau and E. Goupy and J. Piot and M. Quéré and S. Ouazir and H. Abdulrab}, title = {Doc'CISMEF: a search tool based on "encapsulated" MeSH thesaurus.}, journal = {Medinfo}, year = {2001}, volume = {10}, number = {Pt 1}, pages = {314--318} }
3 Communication internationale P. Le Beux, AC. Benhamou, R. Beuscart, A. Bonnin, JM. Brunetaud, SJ. Darmoni, J. DEMONGEOT, M. Fieschi, P. GILLOIS, F. KOHLER, F. Le Duff, V. MORICE, D. Pagonis, M. Spector, G. Soula,, J. Weber.. A common platform for French Virtual Medical Universities.. Challenges of Primary Care-Oriented Health Systems : Innovations by Educational institutions, Health Professions, and Health Services, Londrina, Brazil, October, 2001.
BibTeX: @inproceedings{P.2001, author = {P. Le Beux, AC. Benhamou, R. Beuscart, A. Bonnin, JM. Brunetaud, SJ. Darmoni, J. DEMONGEOT, M. Fieschi, P. GILLOIS, F. KOHLER, F. Le Duff, V. MORICE, D. Pagonis, M. Spector, G. Soula,, J. Weber.}, title = {A common platform for French Virtual Medical Universities.}, booktitle = {Challenges of Primary Care-Oriented Health Systems : Innovations by Educational institutions, Health Professions, and Health Services}, address = {Londrina, Brazil}, month = {October}, year = {2001} }
3 Communication internationale B. Thirion; S. J. Darmoni & J. Benichou. Reading factor: a bibliometric tool to manage a virtual library.. Medinfo , Volume 10, Number Pt 1, Pages 385-389, 2001.
Abstract: Among the many bibliometric criteria used to evaluate biomedical journals, the impact factor is the most commonly used. Despite its limitations, it quantifies the influence of a journal on secondary publications. It does not however evaluate the practical usefulness of primary documents. Usefulness is field-related and varies greatly among specialities. We introduce a new bibliographic criterion, the "reading factor", and define it as the ratio between the number of electronic consultations of a particular journal (i.e., number of clicks on a hyper-link) and the mean number of electronic consultations of all the journals studied (itself calculated by dividing the total number of electronic accesses by the number of journals in the database). We describe its observed distribution, relative to that of the impact factor, based on electronic consultation records from our University Hospital medical digital library, where full-text electronic versions of 45 major biomedical journals have been available since December 1997. From this analysis we found no correlation between the 1999 reading factor and the 1998 impact factor of these 45 journals, and we observed a dramatic change in the hierarchy of journals upon using the reading factor as the yardstick rather than the impact factor. Moreover, we describe how using the reading factor has helped in managing the collection of our University Hospital's virtual library. The selection of journals to be discarded from the virtual library for the year 2001 was based on journals' RF values and this process will repeated over the coming years. The reading factor also permits a cost-analysis of a virtual library. CONCLUSION: The measurement of the reading factor is highly automated, practical and efficient. It appears as a new tool for electronic collection management by librarians, well fitting with economical data.
BibTeX: @article{Thirion2001, author = {B. Thirion and S. J. Darmoni and J. Benichou}, title = {Reading factor: a bibliometric tool to manage a virtual library.}, journal = {Medinfo}, year = {2001}, volume = {10}, number = {Pt 1}, pages = {385--389} }
3 Communication internationale P. Zweigenbaum; S. J. Darmoni & N. Grabar. The contribution of morphological knowledge to French MeSH mapping for information retrieval.. Proc AMIA Symp , Pages 796-800, 2001.
Abstract: MeSH-indexed Internet health directories must provide a mapping from natural language queries to MeSH terms so that both health professionals and the general public can query their contents. We describe here the design of lexical knowledge bases for mapping French expressions to MeSH terms, and the initial evaluation of their contribution to Doc'CISMeF, the search tool of a MeSH-indexed directory of French-language medical Internet resources. The observed trend is in favor of the use of morphological knowledge as a moderate (approximately 5 but effective factor for improving query to term mapping capabilities.
BibTeX: @article{Zweigenbaum2001, author = {P. Zweigenbaum and S. J. Darmoni and N. Grabar}, title = {The contribution of morphological knowledge to French MeSH mapping for information retrieval.}, journal = {Proc AMIA Symp}, year = {2001}, pages = {796--800}, url = {http://litismail.insa-rouen.fr/MnemosNet/psipubli.nsf/ce6c2c540f564a2dc125680200361b7c/3b9e8673a13b74c8c1256a8b00485551/$FILE/amia2001cismeflex.pdf} }
4 Communication nationale Darmoni, SJ. Intérêt de l'Internet dans un service médical. 12ème Journée de la Fédération des Cercles d'Etudes des Gynécologues-Obstétriciens des Hopitaux Généraux Français, Deauville, France, septembre, 2001.
BibTeX: @inproceedings{SJ.2001, author = {Darmoni, SJ}, title = {Intérêt de l'Internet dans un service médical}, booktitle = {12ème Journée de la Fédération des Cercles d'Etudes des Gynécologues-Obstétriciens des Hopitaux Généraux Français}, address = {Deauville, France}, month = {septembre}, year = {2001} }
5 Résumé Darmoni, SJ, MC. HAUGH, B. LUKACS, JP. BOISSEL.. Level of evidence to assess health content quality on the internet.. 9th International Cochrane Colloquium, Lyon, France, October, 2001.
BibTeX: @inproceedings{SJ.2001a, author = {Darmoni, SJ, MC. HAUGH, B. LUKACS, JP. BOISSEL.}, title = {Level of evidence to assess health content quality on the internet.}, booktitle = {9th International Cochrane Colloquium}, address = {Lyon, France}, month = {October}, year = {2001}, url = {http://www.biomedcentral.com/abstracts/cochrane/1/pb076/} }
5 Résumé ZWEIGENBAUM P., GRABAR N., DARMONI SJ.. L'apport de connaissances morphologiques pour la projection de requêtes sur une terminologie normalisée.. TALN (Traitement automatique des langues naturelles), Tours, France, Juillet, Pages 397-402, 2001.
BibTeX: @inproceedings{ZWEIGENBAUM2001a, author = {ZWEIGENBAUM P., GRABAR N., DARMONI SJ.}, title = {L'apport de connaissances morphologiques pour la projection de requêtes sur une terminologie normalisée.}, booktitle = {TALN (Traitement automatique des langues naturelles)}, address = {Tours, France}, month = {Juillet}, year = {2001}, pages = {397-402}, url = {http://www.tln.li.univ-tours.fr/Tln_Colloques/TALN2001-RECITAL2001/Actes/tome1_PDF/partie3_p323_402/art13_p397_402.pdf} }

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