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Towards an Automated Analysis of Biomedical Abstracts

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Data Integration in the Life Sciences (DILS 2006)

Part of the book series: Lecture Notes in Computer Science ((LNBI,volume 4075))

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Abstract

An essential part of bioinformatic research concerns the iterative process of validating hypotheses by analyzing facts stored in databases and in published literature. This process can be enhanced by language technology methods, in particular by automatic text understanding. Since it is becoming increasingly difficult to keep up with the vast number of scientific articles being published, there is a need for more easily accessible representations of the current knowledge. The goal of the research described in this paper is to develop a system aimed to support the large-scale research on metabolic and regulatory pathways by extracting relations between biological objects from descriptions found in literature. We present and evaluate the procedures for semantico-syntactic tagging, dividing the text into parts concerning previous research and current research, syntactic parsing, and transformation of syntactic trees into logical representations similar to the pathway graphs utilized in the Kyoto Encyclopaedia of Genes and Genomes.

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Author information

Authors and Affiliations

  1. School of Humanities and Informatics, University of Skövde, Box 408, 541 28, Skövde, Sweden

    Barbara Gawronska, Björn Erlendsson & Björn Olsson

Authors
  1. Barbara Gawronska
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  2. Björn Erlendsson
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  3. Björn Olsson
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Editor information

Editors and Affiliations

  1. Humboldt-Universität zu Berlin,  

    Ulf Leser

  2. Humboldt-Universität zu Berlin, Unter den Linden 6, 10099, Berlin, Germany

    Felix Naumann

  3. IBM Application and Integration Middleware, 1475 Phoenixville Pike, 19380, West Chester, PA, USA

    Barbara Eckman

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© 2006 Springer-Verlag Berlin Heidelberg

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Gawronska, B., Erlendsson, B., Olsson, B. (2006). Towards an Automated Analysis of Biomedical Abstracts. In: Leser, U., Naumann, F., Eckman, B. (eds) Data Integration in the Life Sciences. DILS 2006. Lecture Notes in Computer Science(), vol 4075. Springer, Berlin, Heidelberg. https://doi.org/10.1007/11799511_6

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  • DOI: https://doi.org/10.1007/11799511_6

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-36593-8

  • Online ISBN: 978-3-540-36595-2

  • eBook Packages: Computer ScienceComputer Science (R0)

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