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A Guided Tour to Computational Haplotyping

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Unveiling Dynamics and Complexity (CiE 2017)

Part of the book series: Lecture Notes in Computer Science ((LNTCS,volume 10307))

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Abstract

Human genomes come in pairs: every individual inherits one version of the genome from the mother and another version from the father. Hence, every chromosome exists in two similar yet distinct “copies”, called haplotypes. The problem of determining the full sequences of both haplotypes is known as phasing or haplotyping. In this paper, we review different approaches for haplotyping and point out how they are formalized as optimization problems. We survey different technologies and, in this way, provide guidance on the characteristics of problem instances resulting from present day technologies. Furthermore, we highlight open algorithmic challenges.

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Author information

Authors and Affiliations

  1. Heinrich Heine University, Düsseldorf, Germany

    Gunnar W. Klau

  2. Center for Bioinformatics, Saarland University, Saarbrücken, Germany

    Tobias Marschall

  3. Max Planck Institute for Informatics, Saarbrücken, Germany

    Tobias Marschall

Authors
  1. Gunnar W. Klau
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  2. Tobias Marschall
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Correspondence to Tobias Marschall .

Editor information

Editors and Affiliations

  1. University of Turku, Turku, Finland

    Jarkko Kari

  2. Christian-Albrechts-University of Kiel, Kiel, Germany

    Florin Manea

  3. Åbo Akademi University, Turku, Finland

    Ion Petre

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Klau, G.W., Marschall, T. (2017). A Guided Tour to Computational Haplotyping. In: Kari, J., Manea, F., Petre, I. (eds) Unveiling Dynamics and Complexity. CiE 2017. Lecture Notes in Computer Science(), vol 10307. Springer, Cham. https://doi.org/10.1007/978-3-319-58741-7_6

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  • DOI: https://doi.org/10.1007/978-3-319-58741-7_6

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