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Volumn 36, Issue 3, 2008, Pages 355-368

Bayesian analysis of elapsed times in continuous-time Markov chains

Author keywords

Bayesian inference; Conditional reference prior; Frequentist coverage; Markov process; Mean squared error; Phylogenetic reconstruction; Prior for branch length

Indexed keywords


EID: 53849090594     PISSN: 03195724     EISSN: None     Source Type: Journal    
DOI: 10.1002/cjs.5550360302     Document Type: Article
Times cited : (226)

References (25)
  • 2
    • 0001141391 scopus 로고
    • On the development of the reference prior method
    • J. M. Bernardo, J. O. Berger, A. P. David & A. F. M. Smith, eds, Oxford University Press, pp
    • J. O. Berger & J. M. Bernardo (1992). On the development of the reference prior method. In Bayesian Statistics IV (J. M. Bernardo, J. O. Berger, A. P. David & A. F. M. Smith, eds.), Oxford University Press, pp. 35-60.
    • (1992) Bayesian Statistics IV , pp. 35-60
    • Berger, J.O.1    Bernardo, J.M.2
  • 4
    • 0002183088 scopus 로고
    • Reference posterior distributions for Bayesian inference (with discussion)
    • J. M. Bernardo (1979). Reference posterior distributions for Bayesian inference (with discussion). Journal of the Royal Statistical Society Series B, 41, 113-147.
    • (1979) Journal of the Royal Statistical Society Series B , vol.41 , pp. 113-147
    • Bernardo, J.M.1
  • 5
    • 0002929101 scopus 로고
    • A model of evolutionary change in proteins
    • National Biomedical Research Foundation, Washington, DC, pp
    • M. Dayhoff, R. Eck & C. Park (1972). A model of evolutionary change in proteins. In Atlas of Protein Sequence and Stricture, vol. 5. National Biomedical Research Foundation, Washington, DC, pp. 89-99.
    • (1972) Atlas of Protein Sequence and Stricture , vol.5 , pp. 89-99
    • Dayhoff, M.1    Eck, R.2    Park, C.3
  • 6
    • 85036904813 scopus 로고    scopus 로고
    • J. Felsenstein (1995, PHYLIP Phylogenetic Inference Package, Version 3.57. Seattle, WA: Distributed by the author. Department of Genetics, University of Washington
    • J. Felsenstein (1995). PHYLIP (Phylogenetic Inference Package), Version 3.57. Seattle, WA: Distributed by the author. Department of Genetics, University of Washington.
  • 7
    • 84962999136 scopus 로고
    • Exact inference for continuous time Markov chain models
    • J. Geweke, R. Marshall & G. Zarkin (1986). Exact inference for continuous time Markov chain models. Review of Economic Studies, 53, 653-669.
    • (1986) Review of Economic Studies , vol.53 , pp. 653-669
    • Geweke, J.1    Marshall, R.2    Zarkin, G.3
  • 8
    • 0344066284 scopus 로고    scopus 로고
    • Language-tree divergence times support the Anatolian theory of Indo-European origin
    • R. Gray & Q. Atkinson (2003). Language-tree divergence times support the Anatolian theory of Indo-European origin. Nature, 426, 435-439.
    • (2003) Nature , vol.426 , pp. 435-439
    • Gray, R.1    Atkinson, Q.2
  • 9
    • 0022376704 scopus 로고
    • Dating the human-ape splitting by a molecular clock of mitochondrial DNA
    • M. Hasegawa, H. Kishino & T. Yano (1985). Dating the human-ape splitting by a molecular clock of mitochondrial DNA. Journal of Molecular Evolution, 22, 160-174.
    • (1985) Journal of Molecular Evolution , vol.22 , pp. 160-174
    • Hasegawa, M.1    Kishino, H.2    Yano, T.3
  • 10
    • 0034849408 scopus 로고    scopus 로고
    • MRBAYES: Bayesian inference of phylogeny
    • J. Huelsenbeck & F. Ronquist (2001). MRBAYES: Bayesian inference of phylogeny. Bioinformatics, 17, 754-755.
    • (2001) Bioinformatics , vol.17 , pp. 754-755
    • Huelsenbeck, J.1    Ronquist, F.2
  • 12
    • 0026691182 scopus 로고
    • The rapid generaton of mutation data matrices from protein sequences
    • D. T. Jones, W. R. Taylor & J. M. Thornton (1992). The rapid generaton of mutation data matrices from protein sequences. Bioinformatics, 8, 275-282.
    • (1992) Bioinformatics , vol.8 , pp. 275-282
    • Jones, D.T.1    Taylor, W.R.2    Thornton, J.M.3
  • 13
    • 0000732090 scopus 로고
    • Evolution of protein molecules
    • H. Munro, ed, Academic Press, New York, pp
    • T. Jukes & C. Cantor (1969). Evolution of protein molecules. In Mammaliam Protein Metabolism (H. Munro, ed.), Academic Press, New York, pp. 21-132.
    • (1969) Mammaliam Protein Metabolism , pp. 21-132
    • Jukes, T.1    Cantor, C.2
  • 15
    • 0019296687 scopus 로고
    • A simple model for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences
    • M. Kimura (1980). A simple model for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution, 16, 111-120.
    • (1980) Journal of Molecular Evolution , vol.16 , pp. 111-120
    • Kimura, M.1
  • 16
    • 0031010764 scopus 로고    scopus 로고
    • Tempo and mode of nucleotide substitutions in gag and env gene fragments in human immunodeficiency virus type 1 populations with a known transmission history
    • T. Leitner, S. Kumar & J. Albert (1997). Tempo and mode of nucleotide substitutions in gag and env gene fragments in human immunodeficiency virus type 1 populations with a known transmission history. Journal of Virology, 71, 4761-4770.
    • (1997) Journal of Virology , vol.71 , pp. 4761-4770
    • Leitner, T.1    Kumar, S.2    Albert, J.3
  • 18
    • 0041386108 scopus 로고    scopus 로고
    • MRBAYES 3: Bayesian phylogenetic inference under mixed models
    • F. Ronquist & J. Huelsenbeck (2003). MRBAYES 3: Bayesian phylogenetic inference under mixed models. Bioinformatics, 19, 1572-1574.
    • (2003) Bioinformatics , vol.19 , pp. 1572-1574
    • Ronquist, F.1    Huelsenbeck, J.2
  • 19
    • 0037910313 scopus 로고    scopus 로고
    • Patterns of transitional mutation biases within and among mammalian genomes
    • M. Rosenberg, S. Subramanian & S. Kumar (2003). Patterns of transitional mutation biases within and among mammalian genomes. Molecular Biology and Evolution, 20, 988-993.
    • (2003) Molecular Biology and Evolution , vol.20 , pp. 988-993
    • Rosenberg, M.1    Subramanian, S.2    Kumar, S.3
  • 20
    • 0034983646 scopus 로고    scopus 로고
    • Bayesian selection of continuous-time Markov chain evolutionary models
    • M. Suchard, R. Weiss & J. Sinsheimer (2001). Bayesian selection of continuous-time Markov chain evolutionary models. Molecular Biology and Evolution, 18, 1001-1013.
    • (2001) Molecular Biology and Evolution , vol.18 , pp. 1001-1013
    • Suchard, M.1    Weiss, R.2    Sinsheimer, J.3
  • 21
    • 0002902272 scopus 로고    scopus 로고
    • Reference priors with partial information
    • D. Sun & J. O. Berger (1998). Reference priors with partial information. Biometrika, 85, 55-71.
    • (1998) Biometrika , vol.85 , pp. 55-71
    • Sun, D.1    Berger, J.O.2
  • 22
    • 0001159310 scopus 로고
    • On formulae for confidence points based on integrals of weighted likelihoods
    • B. Welch & H. W. Peers (1963). On formulae for confidence points based on integrals of weighted likelihoods. Journal of the Royal Statistical Society Series B, 25, 318-329.
    • (1963) Journal of the Royal Statistical Society Series B , vol.25 , pp. 318-329
    • Welch, B.1    Peers, H.W.2
  • 23
    • 0035031966 scopus 로고    scopus 로고
    • A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach
    • S. Whelan & N. Goldman (2001). A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach. Molecular Biology and Evolution, 18, 691-699.
    • (2001) Molecular Biology and Evolution , vol.18 , pp. 691-699
    • Whelan, S.1    Goldman, N.2
  • 24
    • 0030451420 scopus 로고    scopus 로고
    • Among-site rate variation and its impact on phylogenetic analyses
    • Z. Yang (1996). Among-site rate variation and its impact on phylogenetic analyses. Trends in Ecology and Evolution, 11, 367-372.
    • (1996) Trends in Ecology and Evolution , vol.11 , pp. 367-372
    • Yang, Z.1
  • 25
    • 22844452772 scopus 로고    scopus 로고
    • Branch-length prior influences Bayesian posterior probability of phylogeny
    • Z. Yang & B. Rannala (2005). Branch-length prior influences Bayesian posterior probability of phylogeny. Systematic Biology, 54, 455-470.
    • (2005) Systematic Biology , vol.54 , pp. 455-470
    • Yang, Z.1    Rannala, B.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.