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1483 related items for PubMed ID: 11319253

  • 1. A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach.
    Whelan S, Goldman N.
    Mol Biol Evol; 2001 May; 18(5):691-9. PubMed ID: 11319253
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  • 2. Bayesian coestimation of phylogeny and sequence alignment.
    Lunter G, Miklós I, Drummond A, Jensen JL, Hein J.
    BMC Bioinformatics; 2005 Apr 01; 6():83. PubMed ID: 15804354
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  • 3. A class frequency mixture model that adjusts for site-specific amino acid frequencies and improves inference of protein phylogeny.
    Wang HC, Li K, Susko E, Roger AJ.
    BMC Evol Biol; 2008 Dec 16; 8():331. PubMed ID: 19087270
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  • 6. Pandit: a database of protein and associated nucleotide domains with inferred trees.
    Whelan S, de Bakker PI, Goldman N.
    Bioinformatics; 2003 Aug 12; 19(12):1556-63. PubMed ID: 12912837
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  • 7. QMaker: Fast and Accurate Method to Estimate Empirical Models of Protein Evolution.
    Minh BQ, Dang CC, Vinh LS, Lanfear R.
    Syst Biol; 2021 Aug 11; 70(5):1046-1060. PubMed ID: 33616668
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  • 8. PROCOV: maximum likelihood estimation of protein phylogeny under covarion models and site-specific covarion pattern analysis.
    Wang HC, Susko E, Roger AJ.
    BMC Evol Biol; 2009 Sep 08; 9():225. PubMed ID: 19737395
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  • 13. A branch-and-bound algorithm for the inference of ancestral amino-acid sequences when the replacement rate varies among sites: Application to the evolution of five gene families.
    Pupko T, Pe'er I, Hasegawa M, Graur D, Friedman N.
    Bioinformatics; 2002 Aug 08; 18(8):1116-23. PubMed ID: 12176835
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  • 15. FastMG: a simple, fast, and accurate maximum likelihood procedure to estimate amino acid replacement rate matrices from large data sets.
    Dang CC, Le VS, Gascuel O, Hazes B, Le QS.
    BMC Bioinformatics; 2014 Oct 24; 15(1):341. PubMed ID: 25344302
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  • 16. Accuracies of ancestral amino acid sequences inferred by the parsimony, likelihood, and distance methods.
    Zhang J, Nei M.
    J Mol Evol; 1997 Oct 24; 44 Suppl 1():S139-46. PubMed ID: 9071022
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  • 19. Estimating amino acid substitution models: a comparison of Dayhoff's estimator, the resolvent approach and a maximum likelihood method.
    Müller T, Spang R, Vingron M.
    Mol Biol Evol; 2002 Jan 24; 19(1):8-13. PubMed ID: 11752185
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  • 20. New approaches to phylogenetic tree search and their application to large numbers of protein alignments.
    Whelan S.
    Syst Biol; 2007 Oct 24; 56(5):727-40. PubMed ID: 17849327
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