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Parallel Algorithms for Evolutionary History Reconstruction

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Parallel Processing and Applied Mathematics (PPAM 2003)

Part of the book series: Lecture Notes in Computer Science ((LNCS,volume 3019))

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Abstract

A phylogenetic tree construction is one of the most important problems in computational biology. From computational point of view it is also one of the most difficult problem because of its intrinsic intractability. Efficient algorithms are known only for some special cases of the problem which are unrealistic from biological point of view. Many algorithms are known for the problem, but since the problem is hard, they are usually heuristics. In this paper we present three exact parallel algorithms for the problem. They have been tested in computational experiment ran on SUN Fire computer.

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References

  1. Fitch, W.M.: Toward defining the course of evolution: minimum change for a specified tree topology. Systematic Zoology 20, 406–416 (1971)

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  2. Gusfield, D.: Algorithms on Strings, Trees, and Sequences. In: Computer Science and Computational Biology, Cambridge University Press, Cambridge (1997)

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  5. Waterman, M.S.: Introduction to Computational Biology. In: Maps, Sequences and Genomes, Chapman & Hall, London (1995)

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Author information

Authors and Affiliations

  1. Institute of Computing Science, Poznań University of Technology, Piotrowo 3A, 60-965, Poznań, Poland

    Jacek Błażewicz, Piotr Formanowicz, Paweł Kędziora & Paweł Wojciechowski

  2. Institute of Bioorganic Chemistry, Polish Academy of Sciences, Noskowskiego 12/14, 61-704, Poznań, Poland

    Jacek Błażewicz & Piotr Formanowicz

Authors
  1. Jacek Błażewicz
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  2. Piotr Formanowicz
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  3. Paweł Kędziora
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  4. Paweł Wojciechowski
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Editor information

Editors and Affiliations

  1. Institute of Computational and Information Sciences, Czestochowa University of Technology,  

    Roman Wyrzykowski

  2. Computer Science Department, University of Tennessee, TN 37996-3450, Knoxville, USA

    Jack Dongarra

  3. Systems Research Institute, Polish Academy of Science, Warsaw, Poland

    Marcin Paprzycki

  4. Informatics & Mathematical Modeling, Technical University of Denmark, DK-2800, Lyngby, Denmark

    Jerzy Waśniewski

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© 2004 Springer-Verlag Berlin Heidelberg

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Błażewicz, J., Formanowicz, P., Kędziora, P., Wojciechowski, P. (2004). Parallel Algorithms for Evolutionary History Reconstruction. In: Wyrzykowski, R., Dongarra, J., Paprzycki, M., Waśniewski, J. (eds) Parallel Processing and Applied Mathematics. PPAM 2003. Lecture Notes in Computer Science, vol 3019. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-540-24669-5_146

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  • DOI: https://doi.org/10.1007/978-3-540-24669-5_146

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-21946-0

  • Online ISBN: 978-3-540-24669-5

  • eBook Packages: Springer Book Archive

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