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Items: 1 to 20 of 132

1.

Comparison of three methods for estimating rates of synonymous and nonsynonymous nucleotide substitutions.

Tzeng YH, Pan R, Li WH.

Mol Biol Evol. 2004 Dec;21(12):2290-8. Epub 2004 Aug 25.

PMID:
15329386
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Not so different after all: a comparison of methods for detecting amino acid sites under selection.

Kosakovsky Pond SL, Frost SD.

Mol Biol Evol. 2005 May;22(5):1208-22. Epub 2005 Feb 9.

PMID:
15703242
5.

Towards realistic codon models: among site variability and dependency of synonymous and non-synonymous rates.

Mayrose I, Doron-Faigenboim A, Bacharach E, Pupko T.

Bioinformatics. 2007 Jul 1;23(13):i319-27.

PMID:
17646313
7.
8.

Large-scale analyses of synonymous substitution rates can be sensitive to assumptions about the process of mutation.

Aris-Brosou S, Bielawski JP.

Gene. 2006 Aug 15;378:58-64. Epub 2006 May 22.

PMID:
16797879
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12.

Empirical analysis of the most relevant parameters of codon substitution models.

Zoller S, Schneider A.

J Mol Evol. 2010 Jun;70(6):605-12. doi: 10.1007/s00239-010-9356-9. Epub 2010 Jun 5.

PMID:
20526712
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14.

A codon-based model designed to describe lentiviral evolution.

Pedersen AK, Wiuf C, Christiansen FB.

Mol Biol Evol. 1998 Aug;15(8):1069-81.

PMID:
9718734
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16.

An empirical codon model for protein sequence evolution.

Kosiol C, Holmes I, Goldman N.

Mol Biol Evol. 2007 Jul;24(7):1464-79. Epub 2007 Mar 30. Erratum in: Mol Biol Evol. 2007 Sep;24(9):2151.

PMID:
17400572
17.

Likelihood-based clustering (LiBaC) for codon models, a method for grouping sites according to similarities in the underlying process of evolution.

Bao L, Gu H, Dunn KA, Bielawski JP.

Mol Biol Evol. 2008 Sep;25(9):1995-2007. doi: 10.1093/molbev/msn145. Epub 2008 Jun 26.

PMID:
18586695
18.

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