DNA sequencing, Eulerian graphs, and the exact perfect matching problem

J. Blazewicz, P. Formanowicz, M. Kasprzak, P. Schuurman, G.J. Woeginger

    Research output: Chapter in Book/Report/Conference proceedingConference contributionAcademicpeer-review

    9 Citations (Scopus)

    Abstract

    We investigate the computational complexity of a combinatorial problem that arises in DNA sequencing by hybridization: The input consists of an integer l together with a set S of words of length k over the four symbols A, C, G, T. The problem is to decide whether there exists a word of length l that contains every word in S at least once as a subword, and does not contain any other subword of length k. The computational complexity of this problem has been open for some time, and it remains open. What we prove is that this problem is polynomial time equivalent to the exact perfect matching problem in bipartite graphs, which is another infamous combinatorial optimization problem of unknown computational complexity.
    Original languageEnglish
    Title of host publicationProceedings of the 28th Workshop on Graph-Theoretic Concepts in Computer Science (WG'02, Cseky Krumlov, Czech Republic, June 13-15, 2002)
    Place of PublicationBerlin
    PublisherSpringer
    Pages13-24
    DOIs
    Publication statusPublished - 2002

    Publication series

    NameLecture Notes in Computer Science
    Volume2573
    ISSN (Print)0302-9743

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