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Accurate Selection of Models of Protein Evolution

  • Conference paper
Advances in Bioinformatics

Part of the book series: Advances in Intelligent and Soft Computing ((AINSC,volume 74))

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Abstract

We carried out computer simulations to assess the accuracy of the program ProtTest in recovering best-fit empirical models of amino acid replacement. We were able to show that regardless of the selection criteria used, the simulated model or a very close one was identified most of the time. In addition, the estimates of the different model parameters were very accurate. Our results suggest that protein model selection works reasonably well.

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Author information

Authors and Affiliations

  1. Departamento de Bioquímica, Genética, e Inmunología, Universidad de Vigo, Vigo, Spain

    Mateus Patricio & David Posada

  2. Departamento de Biodiversidad y Biología Evolutiva, Museo Nacional de Ciencias Naturales, Madrid, Spain

    Federico Abascal & Rafael Zardoya

Authors
  1. Mateus Patricio
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  2. Federico Abascal
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  3. Rafael Zardoya
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  4. David Posada
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Editor information

Editors and Affiliations

  1. Dep. Informática / CCTC, Universidade do Minho, Campus de Gualtar, 4710-057, Braga, Portugal

    Miguel P. Rocha

  2. Escuela Superior de Ingeniería Informática Edificio Politécnico, Despacho 408 Campus Universitario As Lagoas s/n, 32004, Ourense, Spain

    Florentino Fernández Riverola

  3. Computational Biology and Machine Learning Lab, School of Computing, Queen’s University, K7L 3N6, Kingston, Ontario, Canada

    Hagit Shatkay

  4. Departamento de Informática y Automática Facultad de Ciencias, Universidad de Salamanca, Plaza de la Merced S/N, 37008, Salamanca, Spain

    Juan Manuel Corchado

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© 2010 Springer-Verlag Berlin Heidelberg

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Patricio, M., Abascal, F., Zardoya, R., Posada, D. (2010). Accurate Selection of Models of Protein Evolution. In: Rocha, M.P., Riverola, F.F., Shatkay, H., Corchado, J.M. (eds) Advances in Bioinformatics. Advances in Intelligent and Soft Computing, vol 74. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-13214-8_15

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  • DOI: https://doi.org/10.1007/978-3-642-13214-8_15

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-642-13213-1

  • Online ISBN: 978-3-642-13214-8

  • eBook Packages: EngineeringEngineering (R0)

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