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Flexible Integration of Molecular-Biological Annotation Data: The GenMapper Approach

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Advances in Database Technology - EDBT 2004 (EDBT 2004)

Part of the book series: Lecture Notes in Computer Science ((LNCS,volume 2992))

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Abstract

Molecular-biological annotation data is continuously being collected, curated and made accessible in numerous public data sources. Integration of this data is a major challenge in bioinformatics. We present the GenMapper system that physically integrates heterogeneous annotation data in a flexible way and supports large-scale analysis on the integrated data. It uses a generic data model to uniformly represent different kinds of annotations originating from different data sources. Existing associations between objects, which represent valuable biological knowledge, are explicitly utilized to drive data integration and combine annotation knowledge from different sources. To serve specific analysis needs, powerful operators are provided to derive tailored annotation views from the generic data representation. GenMapper is operational and has been successfully used for large-scale functional profiling of genes. Interactive access is provided under http://www.izbi.de.

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Author information

Authors and Affiliations

  1. Interdisciplinary Centre for Bioinformatics,  

    Hong-Hai Do

  2. Department of Computer Science, University of Leipzig, Germany

    Erhard Rahm

Authors
  1. Hong-Hai Do
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  2. Erhard Rahm
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Editor information

Editors and Affiliations

  1. Purdue University,  

    Elisa Bertino

  2. Laboratory of Distributed Multimedia Information Systems and Applications, Technical University of Crete (MUSIC/TUC) Chania, 73100, Crete, Greece

    Stavros Christodoulakis

  3. Institute of Computer Science, FO.R.T.H., Vassilika Vouton, P.O. Box 1385, GR 71110, Heraklion, Greece

    Dimitris Plexousakis

  4. Department of Computer Science, University of Crete, P.O.Box 2208, GR 71409, Heraklion, Greece

    Vassilis Christophides

  5. National and Kapodistrian University of Athens, Greece

    Manolis Koubarakis

  6. IPD, Universität Karlsruhe, Am Fasanengarten 5, 76131, Karlsruhe,  

    Klemens Böhm

  7. Department of Computer Science and Communication, University of Insubria, 22100, Varese, Italy

    Elena Ferrari

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© 2004 Springer-Verlag Berlin Heidelberg

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Do, HH., Rahm, E. (2004). Flexible Integration of Molecular-Biological Annotation Data: The GenMapper Approach. In: Bertino, E., et al. Advances in Database Technology - EDBT 2004. EDBT 2004. Lecture Notes in Computer Science, vol 2992. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-540-24741-8_47

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  • DOI: https://doi.org/10.1007/978-3-540-24741-8_47

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-21200-3

  • Online ISBN: 978-3-540-24741-8

  • eBook Packages: Springer Book Archive

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