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Sequence alignment using simulated annealing

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  • Sarıyer, Ozan S.
  • Güven, Can

Abstract

We apply simulated annealing to amino acid sequence alignment, a fundamental problem in bioinformatics, particularly relevant to evolution. Our goal was obtaining results comparable to those reached through dynamic programming algorithms, like the Needleman–Wunsch algorithm, as well as making a connection between physics and bioinformatics through a representative example.

Suggested Citation

  • Sarıyer, Ozan S. & Güven, Can, 2010. "Sequence alignment using simulated annealing," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 389(15), pages 3007-3012.
    • Handle: RePEc:eee:phsmap:v:389:y:2010:i:15:p:3007-3012
    DOI: 10.1016/j.physa.2010.02.015
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    Keywords

    Bioinformatics; Simulated annealing;

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