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Extracting Molecular Diversity Between Populations Through Sequence Alignments

  • Steinar Thorvaldsen
  • Tor Flå
  • Nils P. Willassen
Part of the Lecture Notes in Computer Science book series (LNCS, volume 3745)

Abstract

The use of sequence alignments for establishing protein homology relationships has an extensive tradition in the field of bioinformatics, and there is an increasing desire for more statistical methods in the data analysis. We present statistical methods and algorithms that are useful when the protein alignments can be divided into two or more populations based on known features or traits. The algorithms are considered valuable for discovering differences between populations at a molecular level. The approach is illustrated with examples from real biological data sets, and we present experimental results in applying our work on bacterial populations of Vibrio, where the populations are defined by optimal growth temperature, T opt .

Keywords

sequence analysis structural analysis physicochemical properties extremophiles Fisher’s exact test Wilcoxon test 

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Copyright information

© Springer-Verlag Berlin Heidelberg 2005

Authors and Affiliations

  • Steinar Thorvaldsen
    • 1
  • Tor Flå
    • 1
  • Nils P. Willassen
    • 2
  1. 1.Dept of Mathematics and StatisticsFaculty of Science 
  2. 2.Department of Molecular BiotechnologyFaculty of Medicine, University of TromsøTromsøNorway

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