Data Integration in the Life Sciences First International Worksh

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Edited by S. Istrail, P. Pevzner, and M. Waterman Editorial Board: A. Apostolico S. Brunak M. Gelfand T. Lengauer S. Miyano G. Myers M.-F. Sagot D. Sankoff R. Shamir T. Speed M. Vingron W. Wong

Subseries of Lecture Notes in Computer Science

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Berlin Heidelberg New York Hong Kong London Milan Paris Tokyo

Erhard Rahm (Ed.)

Data Integration in the Life Sciences First International Workshop, DILS 2004 Leipzig, Germany, March 25-26, 2004 Proceedings

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Series Editors Sorin Istrail, Celera Genomics, Applied Biosystems, Rockville, MD, USA Pavel Pevzner, University of California, San Diego, CA, USA Michael Waterman, University of Southern California, Los Angeles, CA, USA Volume Editor Erhard Rahm Universit¨at Leipzig, Institut f¨ur Informatik Augustusplatz 10-11, 04109 Leipzig, Germany E-mail: [email protected]

Library of Congress Control Number: 2004102414 CR Subject Classification (1998): H.2, H.3, H.4, J.3 ISSN 0302-9743 ISBN 3-540-21300-7 Springer-Verlag Berlin Heidelberg New York This work is subject to copyright. All rights are reserved, whether the whole or part of the material is concerned, specifically the rights of translation, reprinting, re-use of illustrations, recitation, broadcasting, reproduction on microfilms or in any other way, and storage in data banks. Duplication of this publication or parts thereof is permitted only under the provisions of the German Copyright Law of September 9, 1965, in its current version, and permission for use must always be obtained from Springer-Verlag. Violations are liable for prosecution under the German Copyright Law. Springer-Verlag is a part of Springer Science+Business Media springeronline.com c Springer-Verlag Berlin Heidelberg 2004  Printed in Germany Typesetting: Camera-ready by author, data conversion by Boller Mediendesign Printed on acid-free paper SPIN: 10994115 06/3142 543210

Preface

DILS 2004 (Data Integration in the Life Sciences) is a new bioinformatics workshop focusing on topics related to data management and integration. It was motivated by the observation that new advances in life sciences, e.g., molecular biology, biodiversity, drug discovery and medical research, increasingly depend on bioinformatics methods to manage and analyze vast amounts of highly diverse data. Relevant data is typically distributed across many data sources on the Web and is often structured only to a limited extent. Despite new interoperability technologies such as XML and web services, integration of data is a highly difficult and still largely manual task, especially due to the high degree of semantic heterogeneity and varying data quality as well as specific application requirements. The call for papers attracted many submissions on the workshop topics. After a careful reviewing process the international program committee accepted 13 long and 2 short papers which are included in this volume. They cover a wide spectrum of theoretical and practical issues including scientific/clinical workflows, ontologies, tools/systems, and integration techniques. DILS