Encyclopedia of Algorithms

2008 Edition
| Editors: Ming-Yang Kao

Perfect Phylogeny (Bounded Number of States)

1997; Kannan, Warnow
  • Jesper Jansson
Reference work entry
DOI: https://doi.org/10.1007/978-0-387-30162-4_288

Keywords and Synonyms

Compatibility of characters with a bounded number of states; Convex tree-realization of partitions containing a bounded number of sets            

Problem Definition

Let \( { S = \{s_1,s_2,\dots,s_n\} } \)

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Notes

Acknowledgments

Supported in part by Kyushu University, JSPS (Japan Society for the Promotion of Science), and INRIA Lille – Nord Europe.

Recommended Reading

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    Agarwala, R., Fernández-Baca, D.: A polynomial-time algorithm for the perfect phylogeny problem when the number of character states is fixed. SIAM J. Comput. 23, 1216–1224 (1994)MathSciNetMATHCrossRefGoogle Scholar
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    Bodlaender, H.L., Fellows, M.R., Warnow, T.: Two strikes against perfect phylogeny. In: Proceedings of the 19th International Colloquium on Automata, Languages and Programming (ICALP 1992). Lecture Notes in Computer Science, vol. 623, pp. 273–283. Springer, Berlin (1992)Google Scholar
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    Dress, A., Steel, M.: Convex tree realizations of partitions. Appl. Math. Lett. 5, 3–6 (1992)MathSciNetMATHCrossRefGoogle Scholar
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    Felsenstein, J.: Inferring Phylogenies. Sinauer Associates, Inc. Sunderland, Massachusetts (2004)Google Scholar
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    Fernández-Baca, D.: The Perfect Phylogeny Problem. In: Cheng, X., Du D.-Z. (eds.) Steiner Trees in Industry, pp. 203–234. Kluwer Academic Publishers, Dordrecht, Netherlands (2001)CrossRefGoogle Scholar
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    Kannan, S., Warnow, T.: Inferring evolutionary history from DNA sequences. SIAM J. Comput. 23, 713–737 (1994)MathSciNetMATHCrossRefGoogle Scholar
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    Kannan, S., Warnow, T.: A fast algorithm for the computation and enumeration of perfect phylogenies. SIAM J. Comput. 26, 1749–1763 (1997)MathSciNetMATHCrossRefGoogle Scholar
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    McMorris, F.R.: On the compatibility of binary qualitative taxonomic characters. Bull. Math. Biol. 39, 133–138 (1977)MathSciNetMATHGoogle Scholar
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Copyright information

© Springer-Verlag 2008

Authors and Affiliations

  • Jesper Jansson
    • 1
  1. 1.Ochanomizu UniversityTokyoJapan