An Ant-Based Model for Multiple Sequence Alignment

  • Frédéric Guinand
  • Yoann Pigné
Conference paper
Part of the Lecture Notes in Computer Science book series (LNCS, volume 4818)

Abstract

Multiple sequence alignment is a key process in today’s biology, and finding a relevant alignment of several sequences is much more challenging than just optimizing some improbable evaluation functions. Our approach for addressing multiple sequence alignment focuses on the building of structures in a new graph model: the factor graph model. This model relies on block-based formulation of the original problem, formulation that seems to be one of the most suitable ways for capturing evolutionary aspects of alignment. The structures are implicitly built by a colony of ants laying down pheromones in the factor graphs, according to relations between blocks belonging to the different sequences.

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Copyright information

© Springer-Verlag Berlin Heidelberg 2008

Authors and Affiliations

  • Frédéric Guinand
    • 1
  • Yoann Pigné
    • 1
  1. 1.LITIS laboratoryLe Havre UniversityFrance

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