CONNECTING MEDICAL INFORMATICS AND BIO-INFORMATICS doc

CONNECTING MEDICAL INFORMATICS AND BIO-INFORMATICS Studies in Health Technology and Informatics This book series was started in 1990 to promote research conducted under the auspices of the EC programmes’ Advanced Informatics in Medicine (AIM) and Biomedical and Health Research (BHR) bioengineering branch. A driving aspect of international health informatics is that telecommunication technology, rehabilitative technology, intelligent home technology and many other components are moving together and form one integrated world of information and communication media. The complete series has been accepted in Medline. Volumes from 2005 onwards are available online. Series Editors: Dr. J.P. Christensen, Prof. G. de Moor, Dr. A. Famili, Prof. A. Hasman, Prof. L. Hunter, Dr. I. Iakovidis, Dr. Z. Kolitsi, Dr. O. Le Dour, Dr. A. Lymberis, Dr. P. Niederer, Prof. A. Pedotti, Prof. O. Rienhoff, Prof. F.H. Roger France, Dr. N. Rossing, Prof. N. Saranummi, Dr. E.R. Siegel and Dr. P. Wilson Volume 116 Recently published in this series Vol. 115. N. Saranummi, D. Piggott, D.G. Katehakis, M. Tsiknakis and K. Bernstein (Eds.), Regional Health Economies and ICT Services Vol. 114. L. Bos, S. Laxminarayan and A. Marsh (Eds.), Medical and Care Compunetics 2 Vol. 113. J.S. Suri, C. Yuan, D.L. Wilson and S. Laxminarayan (Eds.), Plaque Imaging: Pixel to Molecular Level Vol. 112. T. Solomonides, R. McClatchey, V. Breton, Y. Legré and S. Nørager (Eds.), From Grid to Healthgrid Vol. 111. J.D. Westwood, R.S. Haluck, H.M. Hoffman, G.T. Mogel, R. Phillips, R.A. Robb and K.G. Vosburgh (Eds.), Medicine Meets Virtual Reality 13 Vol. 110. F.H. Roger France, E. De Clercq, G. De Moor and J. van der Lei (Eds.), Health Continuum and Data Exchange in Belgium and in the Netherlands – Proceedings of Medical Informatics Congress (MIC 2004) & 5th Belgian e-Health Conference Vol. 109. E.J.S. Hovenga and J. Mantas (Eds.), Global Health Informatics Education Vol. 108. A. Lymberis and D. de Rossi (Eds.), Wearable eHealth Systems for Personalised Health Management – State of the Art and Future Challenges Vol. 107. M. Fieschi, E. Coiera and Y C.J. Li (Eds.), MEDINFO 2004 – Proceedings of the 11th World Congress on Medical Informatics Vol. 106. G. Demiris (Ed.), e-Health: Current Status and Future Trends Vol. 105. M. Duplaga, K. Zieliński and D. Ingram (Eds.), Transformation of Healthcare with Information Technologies Vol. 104. R. Latifi (Ed.), Establishing Telemedicine in Developing Countries: From Inception to Implementation ISSN 0926-9630 Connecting Medical Informatics and Bio-Informatics Proceedings of MIE2005 The XIXth International Congress of the European Federation for Medical Informatics Edited by Rolf Engelbrecht Institute for Medical Informatics, GSF National Research Centre for Environment and Health, Munich-Neuherberg, Germany Antoine Geissbuhler Service of Medical Informatics, University Hospitals of Geneva, Switzerland Christian Lovis Service of Medical Informatics, University Hospitals of Geneva, Switzerland and George Mihalas Department of Biophysics and Medical Informatics, “Victor Babes” University of Medicine and Pharmacy, Timisoara, Romania Amsterdam • Berlin • Oxford • Tokyo • Washington, DC © 2005 EFMI – European Federation for Medical Informatics All rights reserved. No part of this book may be reproduced, stored in a retrieval system, or transmitted, in any form or by any means, without prior written permission from the publisher. ISBN 1-58603-549-5 Library of Congress Control Number: 2005930831 Publisher IOS Press Nieuwe Hemweg 6B 1013 BG Amsterdam Netherlands fax: +31 20 620 3419 e-mail: order@iospress.nl Distributor in the UK and Ireland Distributor in the USA and Canada IOS Press/Lavis Marketing IOS Press, Inc. 73 Lime Walk 4502 Rachael Manor Drive Headington Fairfax, VA 22032 Oxford OX3 7AD USA England fax: +1 703 323 3668 fax: +44 1865 750079 e-mail: iosbooks@iospress.com LEGAL NOTICE The publisher is not responsible for the use which might be made of the following information. PRINTED IN THE NETHERLANDS Connecting Medical Informatics and Bio-Informatics v R. Engelbrecht et al. (Eds.) IOS Press, 2005 © 2005 EFMI – European Federation for Medical Informatics. All rights reserved. Preface After a successful MEDINFO in 1992, the Swiss Society for Medical Informatics hosts again a major event in medical informatics – the 19 th Medical Informatics Europe Confer- ence, under the generic name of MIE2005. The host city, Geneva, is well known for its commitment in international healthcare, being the residence of several international organi- sations, including WHO. Geneva is also synonym with other major medical informatics achievements: the DIOGENE hospital information system and Natural Language Process- ing, both strongly connected to Geneva and its University Hospital. The motto of the conference, “Connecting Medical Informatics and Bio-Informatics” emphasizes the convergence of these disciplines, illustrated by the Swiss Institute of Bioin- formatics, also founded in Geneva, and home of the SwissProt database. It also reflects the growing role of the co-operation of different disciplines in healthcare, co-operation which tends to become integration. The major challenge of this decade is to develop and extend the use of information technology for the improvement of patient oriented health care. It has to integrate results from other areas and scientific disciplines, and interoperability will be the key problem to be solved. All these trends were already reflected in MIE2005 submissions and addressed a large palette of topics, including classical topics as standards, terminology, coding, imaging etc. The selection process was a difficult task for the Scientific Program Committee. We kept the scientific quality as the major determinant criterion for selection. There were over 300 submitted papers to be presented orally or as poster. A score was given by 2 and more reviewers selected from a panel of more than 160 experts. The reviews were accompanied by suggestions and advice about possible improvements of the submitted paper. The type of presentation was sometimes modified from oral presentation to a short oral presentation combined with a poster or just a poster for detailed presentation and deep discussion. In a second step, when creating the scientific programme, there were a few modifications of the presentation type, mainly due to the limited time slots available for oral presentations. The result of SPC activity is reflected by the Conference programme and the Proceed- ings. The printed version has limited pages and therefore limited numbers of papers of all types of presentations (oral and poster presentations) which are most qualified. It will be cited in Medline. The full content was proposed for the CD version of the proceedings; it is an EFMI publication and contains all accepted papers in the revised version and also the workshops. This way of publishing enables searching keywords, the title and the full con- tent. Workshops were offered to the participants like in previous MIEs, organised or sup- ported by EFMI working groups. A clearer distinction between presentations in workshops and presentations in scientific sessions was aimed: while a pure scientific paper presents results in a classical manner, a workshop paper would rather present and comment unful- fillments or raise questions. The workshop procedure comprises a brief introduction (usu- ally invited), followed by several short statements or presentations. The major output is ex- pected from discussions. The results which might be achieved will be published after MIE2005 separately. All documents, (material from the workshops) available at publishing vi time will be included on the CD proceedings. We plan to make it also available on the EFMI web site by the moment of this material publication. We shall also mention that the call for tutorials resulted in a set of high ranked contribu- tions, included in the “scientific workflow” of each MIE conference. They will provide ba- sics and deep insight into certain disciplines and topics related to medical informatics. It may help to develop a better understanding of some presentations and workshops during MIE2005. In this context tutorials are a substantial part and the material developed should be available to a broader community. The proceedings are an integrated part of MIE2005. We would like to thank all those who have made the printed volume and the CD possible, the authors, the scientific pro- gramme committee, the reviewers, and the teams in Geneva and Munich, Robert Baud, Jérôme Billet, Henning Müller, Claudia Hildebrand, Ruslan David, Jutta Balint, Alfred Breier, Silvia Weinzierl and some more. Rolf Engelbrecht Antoine Geissbuhler Christian Lovis Gheorghe Mihalas vii Reviewers for MIE2005 The following reviewers, listed in alphabetical order, contributed to the selection process of the papers. Abidi, Raza Afrin, Lawrence Åhleldt, Hans Albuisson, Eliane Ammenwerth, Elske Pitsillides, Andreas Angelidis, Pantelis Aronsky, Dominik Arredondo, María Teresa Bainbridge, Mike Barber, Barry Barton, Amy Baud, Robert Bellazzi, Riccardo Betts, Helen Beuscart, Régis Beuscart-Zéphir, Marie-Catherine Blobel, Bernd Bodenreider, Olivier Boire, Jean-Yves Brender, Jytte Brigl, Birgit Bruins Slot, Harm Brunetaud, Jean Marc Bruun-Rasmussen, Morten Bryden, John S. Bürkle, Thomas Ceinos, Carmen Charlet, Jean Christian, Lovis Chute, Christopher Cimino, James Cinquin, Philippe Cornet, Ronald Darmoni, Stefan David, Ruslan de Keizer, Nicolette de Lusignan, Simon Demichelis, Francesca Demiris, Thanos Dudeck, Joachim Dumitru, Roxana Corina Effken, Judith Eich, Hans-Peter Eils, Roland Engelmann, Uwe Frankewitsch, Thomas Fruman, Amir García-Rojo, Marcial Garde, Sebastian Geissbuhler, Antoine Gell, Guenther Gibaud, Bernard Goetz, Christoph Goh, Hsien Ming Grimson, Jane Grimson, William Hasman, Arie Heinzl, Harald Hildebrand, Claudia Hippe, Zdzislaw Hirose, Yasuyuki Hoelzer, Simon Horsch, Alexander Hovenga, Evelyn Huet, Bernard Isaacs, Sedick Jao, Chiang Jaulent, Marie-Christine Jávor, András Jenders, Robert Joubert, Michel Juhola, Martti Jung, Benjamin Kern, Josipa Kindler, Hauke Knaup, Petra Kokol, Peter viii Kondo Oestreicher, Mitsuko Krauthammer, Michael Kuma, Hisao Kverneland, Arne Kwak, Yun Sik Laforest, Frederique Lampe, Kristian Landais, Paul Le Beux, Pierre Le Duff, Franck Legrand, Louis Lehmann, Thomas Lehmann, Christoph Leiner, Florian Li, Jack Liaskos, Joseph Lippert, Soren Lorenzi, Nancy Lungeanu, Diana Maglaveras, Nicos Makikawa, Masaaki Marsh, Andy Martin-Sanchez, Fernando Mast, Oliver Mazzoleni, M.Cristina Meinzer, Hans-Peter Mihalas, George Minato, Kotaro Moehr, Jochen Moisil, Ioana Nishibori, Masahiro Nordberg, Ragnar Olivieri, Nora Oswald, Helmut Øyri, Karl Petrovecki, Mladen Pharow, Peter Popper, Mikulas Power, Michael Punys, Vytenis Rajkovic, Vladislav Reichert, Assa Renard, Jean-Marie Rigby, Michael Roberts, Jean Roger France, Francis Rossing, Niels Ruotsalainen, Pekka Sadan, Batami Saranummi, Niilo Sboner, Andrea Serio, Angelo Seroussi, Brigitte Shahsavar, Nosrat Shifrin, Michael Simon, Pál Skiba, Diane Sousa Pereira, Antonio Stoicu-Tivadar, Lacramioara Stroetmann, Karl A. Surján, György Suselj, Marjan Takabayashi, Katsuhiko Talmon, Jan Trpisovsky, Tomas Tschopp, Mathias van Bemmel, Jan H. Vellidou, Eleftheria Vimarlund, Vivian Vovc, Victor Wathelet, Bernard Weber, Patrick Weltner, János Yuasa, Tetsuya Zvárová, Jana ix Contents Preface v R. Engelbrecht, A. Geissbuhler, C. Lovis and G. Mihalas Reviewers for MIE2005 vii Section 1. Bioinformatics and Medical Genomics Immunogenetics Sequence Annotation: The Strategy of IMGT Based on IMGT-ONTOLOGY 3 Véronique Giudicelli, Denys Chaume, Joumana Jabado-Michaloud and Marie-Paule Lefranc An Integrated Data-Warehouse-Concept for Clinical and Biological Information 9 Dominik Brammen, Christian Katzer, Rainer Röhrig, Katja Weismüller, Michael Maier, Hamid Hossain, Thilo Menges, Gunter Hempelmann and Trinad Chakraborty Time Series Models on Analysing Mortality Rates and Acute Childhood Lymphoid Leukaemia 15 Maria Kis Bio-Health Information: A Preliminary Review of On-Line Cystic Fibrosis Resources 21 Xia Jing, Stephen Kay and Nicholas R. Hardiker Bioinformatics Meets Clinical Informatics 27 Jeremy Smith and Denis Protti SITRANS: A Web Information System for Microarray Experiments 33 Frédérique Laforest, Anne Tchounikine, Tarak Chaari, Hubert Charles and Federica Calevro Practical Approaches to the Development of Biomedical Informatics: The INFOBIOMED Network of Excellence 39 Hans-Peter Eich, Guillermo de la Calle, Carlos Diaz, Scott Boyer, A.S. Peña, Bruno G. Loos, Peter Ghazal and Inge Bernstein Section 2. Computerized Patient Record Quality Labelling and Certification of Electronic Health Record Systems 47 Morten Bruun-Rasmussen, Knut Bernstein, Søren Vingtoft, Christian Nøhr and Stig Kjær Andersen Computerized Case History – an Effective Tool for Management of Patients and Clinical Trials 53 Nikita Shklovsky-Kordi, Boris Zingerman, Nikolay Rivkind, Saveli Goldberg, Scott Davis, Lyuba Varticovski, Marina Krol, A.M. Kremenetzkaia, Andrei Vorobiev and Ilia Serebriyskiy Information on Medication History – Basis for Improved Prescribing 59 Martina Zorko and Marjan Sušelj Users’ Needs and Expectations of Electronic Medical Record Systems in Family Medicine Residence Settings 65 George Demiris, Karen L. Courtney and Steven E. Waldren x Tracking Referents in Electronic Health Records 71 Werner Ceusters and Barry Smith The French Organ Transplant Data System 77 William Nigel Strang, Philippe Tuppin, Alain Atinault and Christian Jacquelinet Avoiding Doubles in Distributed Nominative Medical Databases: Optimization of the Needleman and Wunsch Algorithm 83 Loïc le Mignot, Claude Mugnier, Mohamed Ben Saïd, Jean-Philippe Jais, Jean-Baptiste Richard, Christine le Bihan-Benjamin, Pierre Taupin and Paul Landais Participatory Work Flow Analysis Prior to Implementation of EPR: A Method to Discover Needs for Change 89 Pernille Bertelsen, Inge Madsen and Per Hostrup Use of Computer and Respiratory Inductance Plethysmography for the Automated Detection of Swallowing in the Elderly 95 Alexandre Moreau-Gaudry, Abdelkebir Sabil, Pierre Baconnier, Gila Benchetrit and Alain Franco Representing the Patient’s Therapeutic History in Medical Records and in Guideline Recommendations for Chronic Diseases Using a Unique Model 101 Vahid Ebrahiminia, Catherine Duclos, Massoud E. Toussi, Christine Riou, Regis Cohen and Alain Venot mGen – An Open Source Framework for Generating Clinical Documents 107 Fredrik Lindahl and Olof Torgersson Comparing Different Approaches to Two-Level Modelling of Electronic Health Records 113 Line Michelsen, Signe S. Pedersen, Helene B. Tilma and Stig K. Andersen Introducing the Electronic Health Record in Austria 119 Wolfgang Dorda, Georg Duftschmid, Lukas Gerhold, Walter Gall and Jürgen Gambal Medical Record Linkage of Anonymous Registries without Validated Sample Linkage of the Dutch Perinatal Registries 125 Miranda Tromp, Nora Méray, Anita C.J. Ravelli, Johannes B. Reitsma and Gouke J. Bonsel The Core Data Elements of Electronic Health Record in Finland 131 Kristiina Häyrinen and Kaija Saranto HealthInfoCDA: Case Composition Using Electronic Health Record Data Sources 137 Grace I. Paterson, Syed Sibte Raza Abidi and Steven D. Soroka Nursing Documentation in Occupational Health 143 Denise Tolfo Silveira and Heimar de Fátima Marin Section 3. Decision Support and Clinical Guidelines Structuring Clinical Guidelines through the Recognition of Deontic Operators 151 Gersende Georg, Isabelle Colombet and Marie-Christine Jaulent Prototypical Cases and Adaptation Rules for Diagnosis of Dysmorphic Syndromes 157 Rainer Schmidt and Tina Waligora [...]... human and other vertebrates and related proteins of the immune system that belong to the IgSF and MhcSF superfamilies IMGTđ is the international reference in immunogenetics and immunoinformatics and consists of several sequence, genome and structure databases, of Web resources and of interactive tools [2] IMGT/LIGM-DB is the first and the largest IMGT database in which are managed, analysed and annotated... of microarray data Bioinformatics 2003;19(14):1844-5 8 Address for correspondence Dr med Christian Katzer Department of Anaesthesiology, Intensive Care Medicine and Pain Therapy University Hospital Giessen Rudolf-Buchheim-Str.7 35392 Giessen Connecting Medical Informatics and Bio -Informatics R Engelbrecht et al (Eds.) IOS Press, 2005 â 2005 EFMI European Federation for Medical Informatics All rights... 99 65 , Fax: +33 4 99 61 99 01 Email: lefranc@ligm.igh.cnrs.fr, URL : http://imgt.cines.fr Connecting Medical Informatics and Bio -Informatics R Engelbrecht et al (Eds.) IOS Press, 2005 â 2005 EFMI European Federation for Medical Informatics All rights reserved 9 An Integrated Data-Warehouse-Concept for Clinical and Biological Information Dominik Brammena, Christian Katzera, Rainer Rửhriga, Katja Weismỹllera,... 1016 1021 1027 This page intentionally left blank Section 1 Bioinformatics and Medical Genomics This page intentionally left blank Connecting Medical Informatics and Bio -Informatics R Engelbrecht et al (Eds.) IOS Press, 2005 â 2005 EFMI European Federation for Medical Informatics All rights reserved 3 Immunogenetics Sequence Annotation: the Strategy of IMGT based on IMGT-ONTOLOGY Vộronique Giudicellia,... administration) to a semantic network in the medical data dictionary and an entity attribute value (EAV) model for storing medical data items [5] The dynamic GUI is designed for the various and changing demands of the clinical documentation (Figure 2) Since medical data have to be interpreted in time context, every information owns a timestamp for storage and presentation Figure 2- A screenshot of the... Ceusters, John Eisner and Barry Smith Representing Clinical Knowledge in Oral Medicine Using Ontologies Marie Gustafsson and Gửran Falkman The Epistemological-Ontological Divide in Clinical Radiology Dirk Marwede and Matthew Fielding Representation of Medical Informatics in the Wikipedia and Its Perspectives Udo Altmann Does HL7 Go towards an Architecture Standard? Frank Oemig and Bernd Blobel Integrating... Eirik rsand, Ole Anders Walseth, Niklas Andersson, Ruchith Fernando, Ove Granberg, Johan G Bellika and Gunnar Hartvigsen Ontology Driven Construction of a Knowledgebase for Bayesian Decision Models Based on UMLS Sarmad Sadeghi, Afsaneh Barzi and Jack W Smith Estimation of Sex-Age Specific Clinical Reference Ranges by Nonlinear Optimization Method Takeo Shibata, Yoichi Ogushi, Teppei Ogawa and Takashi... Lusignan, Nigel Hague, Tom Chan and Billy Dzregah Central IT-Structures for Integrated Medical Research and Health Care of Viral Hepatitis Hep-Net Thomas H Mỹller Real Association of Factors with Inappropriate Hospital Days Bernard Huet and Maxime Cauterman Author Index 971 977 983 989 994 1000 1004 1010 1016 1021 1027 This page intentionally left blank Section 1 Bioinformatics and Medical Genomics This page... Diagnosis of Acid Base and Anion Gap Disorders Edward Kacki and Andrzej Maolepszy Outcome Prediction after Moderate and Severe Head Injury Using an Artificial Neural Network Min-Huei Hsu, Yu-Chuan Li, Wen-Ta Chiu and Ju-Chuan Yen 163 169 175 181 187 193 199 205 211 217 223 229 235 241 Section 4 Educational Technologies and Methodologies Computer-Based Training in Medicine and Learning Theories Martin... Chen and Chen Chjeh Feng 305 311 316 322 328 334 340 352 Section 6 Healthcare Networks Developing Online Communities with LAMP (Linux, Apache, MySQL, PHP) the IMIA OSNI and CHIRAD Experiences Peter J Murray and Karl ỉyri 361 xiii Preparing the Electronic Patient Record for Collaborative Environments and eHealth Petra Knaup, Sebastian Garde and Reinhold Haux Understanding Telecardiology Success and . CONNECTING MEDICAL INFORMATICS AND BIO -INFORMATICS Studies in Health Technology and Informatics This book series was. Connecting Medical Informatics and Bio -Informatics Proceedings of MIE2005 The XIXth International Congress of the European Federation for Medical Informatics Edited