Probability distribution of molecular evolutionary trees: A new method of phylogenetic inference

@article{Rannala2006ProbabilityDO,
  title={Probability distribution of molecular evolutionary trees: A new method of phylogenetic inference},
  author={B. Rannala and Z. Yang},
  journal={Journal of Molecular Evolution},
  year={2006},
  volume={43},
  pages={304-311}
}
  • B. Rannala, Z. Yang
  • Published 2006
  • Biology, Medicine
  • Journal of Molecular Evolution
  • A new method is presented for inferring evolutionary trees using nucleotide sequence data. The birth-death process is used as a model of speciation and extinction to specify the prior distribution of phylogenies and branching times. Nucleotide substitution is modeled by a continuous-time Markov process. Parameters of the branching model and the substitution model are estimated by maximum likelihood. The posterior probabilities of different phylogenies are calculated and the phylogeny with the… CONTINUE READING
    1,219 Citations

    Figures, Tables, and Topics from this paper

    2 Theoretical Basis of Likelihood Methods in Molecular Phylogenetic Inference
    • Highly Influenced
    • PDF
    Bayesian phylogenetic inference via Monte Carlo methods
    • 9
    Phylogenetic Tree Construction using Markov Chain
    • 12
    • PDF
    Bayesian estimation of ancestral character states on phylogenies.
    • 1,050
    • PDF
    Branch-length prior influences Bayesian posterior probability of phylogeny.
    • 196
    • PDF
    Exact distribution of divergence times under the birth-death-sampling model
    • 2
    • PDF
    Empirical evaluation of a prior for Bayesian phylogenetic inference
    • Z. Yang
    • Mathematics, Medicine
    • Philosophical Transactions of the Royal Society B: Biological Sciences
    • 2008
    • 28
    • PDF

    References

    SHOWING 1-10 OF 54 REFERENCES
    Evaluation of several methods for estimating phylogenetic trees when substitution rates differ over nucleotide sites
    • Z. Yang
    • Biology
    • Journal of Molecular Evolution
    • 2004
    • 38
    • PDF
    Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea
    • 1,936
    MAXIMUM LIKELIHOOD TREES FROM DNA SEQUENCES: A PECULIAR STATISTICAL ESTIMATION PROBLEM
    • 243
    Phylogenetic analysis using parsimony and likelihood methods
    • Z. Yang
    • Biology, Medicine
    • Journal of Molecular Evolution
    • 2005
    • 171
    • PDF
    Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: Approximate methods
    • Z. Yang
    • Biology, Medicine
    • Journal of Molecular Evolution
    • 2004
    • 2,192
    • PDF
    Robustness of maximum likelihood tree estimation against different patterns of base substitutions
    • 40
    Molecular Evolutionary Genetics
    • 15,025
    • PDF