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A method for Semi-automatic Standard Integration in Systems Biology
Institute for Computer Science Universität Rostock.
Linköping University, The Institute of Technology. Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
2008 (English)In: Database and Expert Systems Applications,2008, Heidelberg, Germany: Springer , 2008, 745-752 p.Conference paper (Refereed)
Abstract [en]

The development of standards for biological pathways has led to a huge amount of model data stored in a variety of different formats represented in XML (e. g. SBML) or OWL (e. g. BioPAX). As a result, there is an urgent need for the conversion of data between different formats, especially between XML and OWL data. The fact that that transformation is hard to realize hampers the integration of data in the area. Addressing this problem, the following article proposes a general, semi-automatic solution by suggesting the transformation of XML Schema based data into an OWL format. The general solution presented here will support biologists by offering them a way to query data of any format and as well compare different data files or schemas to each other using OWL as a common format for matching and providing a backwards transformation to XML Schema. The paper presents a first architectural approach and its prototype implementation. The evaluation showed that the approach is promising.

Place, publisher, year, edition, pages
Heidelberg, Germany: Springer , 2008. 745-752 p.
Lecture Notes in Computer Science, ISSN 0302-9743 (print), 1611-3349 (online) ; 5181
Keyword [en]
Bioinformatics, SBMl, PSI MI, Integration
National Category
Computer Science
URN: urn:nbn:se:liu:diva-43765DOI: 10.1007/978-3-540-85654-2_66Local ID: 74680ISBN: 978-3-540-85653-5 (print)ISBN: 978-3-540-85654-2 (online)OAI: diva2:264625
19th International Conference on Database and Expert Systems Applications, DEXA 2008
Available from: 2009-10-10 Created: 2009-10-10 Last updated: 2014-08-12

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Strömbäck, Lena
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