Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene.

@article{Nielsen1998LikelihoodMF,
  title={Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene.},
  author={Rasmus Nielsen and Zamin Yang},
  journal={Genetics},
  year={1998},
  volume={148 3},
  pages={929-36}
}
Several codon-based models for the evolution of protein-coding DNA sequences are developed that account for varying selection intensity among amino acid sites. The "neutral model" assumes two categories of sites at which amino acid replacements are either neutral or deleterious. The "positive-selection model" assumes an additional category of positively selected sites at which nonsynonymous substitutions occur at a higher rate than synonymous ones. This model is also used to identify target… CONTINUE READING
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The ratio of replacement to silent divergence and and may be more powerful than previous methods . For tests of neutrality

  • T. Ohta
  • J . Evol . Biol .
  • 1997

New methods for estimating the numbers of synonymousof slightly deleterious mutations , such as the models and nonsynonymous substitutions

  • D. T. Jones, W. R. Taylor, J. M. Thornton
  • J . Mol . Evol .
  • 1995

Maximum likelihood estimation of phylogeny from proach enables identification of the potential target sites DNA sequences when substitution rates differ over sites

  • Z. Yang
  • Mol . Biol . Evol .
  • 1993
1 Excerpt

The rapid predictions concerning the distribution of selection in - generation of mutation data matrices from protein sequences

  • C.-B. Stewart, D. P. Mindell
  • CABIOS
  • 1992

Identification of conserved and divergent domains within the envelope gene of the acquired immunodeficiency syn - such knowledge in order to detect positive selection . Fur - drome virus

  • Z. ap-Yang
  • Proc . Natl . Acad . Sci . USA
  • 1986

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