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Items: 1 to 20 of 23

1.

Recovering evolutionary trees under a more realistic model of sequence evolution.

Lockhart PJ, Steel MA, Hendy MD, Penny D.

Mol Biol Evol. 1994 Jul;11(4):605-12.

PMID:
19391266
2.

Frequent and widespread parallel evolution of protein sequences.

Rokas A, Carroll SB.

Mol Biol Evol. 2008 Sep;25(9):1943-53. doi: 10.1093/molbev/msn143. Epub 2008 Jun 25.

PMID:
18583353
3.

Adaptive evolution and functional redesign of core metabolic proteins in snakes.

Castoe TA, Jiang ZJ, Gu W, Wang ZO, Pollock DD.

PLoS One. 2008 May 21;3(5):e2201. doi: 10.1371/journal.pone.0002201.

4.

Toxin-resistant sodium channels: parallel adaptive evolution across a complete gene family.

Jost MC, Hillis DM, Lu Y, Kyle JW, Fozzard HA, Zakon HH.

Mol Biol Evol. 2008 Jun;25(6):1016-24. doi: 10.1093/molbev/msn025. Epub 2008 Feb 6.

5.

Suppression of long-branch attraction artefacts in the animal phylogeny using a site-heterogeneous model.

Lartillot N, Brinkmann H, Philippe H.

BMC Evol Biol. 2007 Feb 8;7 Suppl 1:S4.

6.

Assessing the accuracy of ancestral protein reconstruction methods.

Williams PD, Pollock DD, Blackburne BP, Goldstein RA.

PLoS Comput Biol. 2006 Jun 23;2(6):e69. Epub 2006 Jun 23.

7.

Sodium channel genes and the evolution of diversity in communication signals of electric fishes: convergent molecular evolution.

Zakon HH, Lu Y, Zwickl DJ, Hillis DM.

Proc Natl Acad Sci U S A. 2006 Mar 7;103(10):3675-80. Epub 2006 Feb 27.

8.

Early evolution of the venom system in lizards and snakes.

Fry BG, Vidal N, Norman JA, Vonk FJ, Scheib H, Ramjan SF, Kuruppu S, Fung K, Hedges SB, Richardson MK, Hodgson WC, Ignjatovic V, Summerhayes R, Kochva E.

Nature. 2006 Feb 2;439(7076):584-8. Epub 2005 Nov 16.

PMID:
16292255
9.

The phylogeny of squamate reptiles (lizards, snakes, and amphisbaenians) inferred from nine nuclear protein-coding genes.

Vidal N, Hedges SB.

C R Biol. 2005 Oct-Nov;328(10-11):1000-8. Epub 2005 Oct 27.

PMID:
16286089
10.

An empirical assessment of long-branch attraction artefacts in deep eukaryotic phylogenomics.

Brinkmann H, van der Giezen M, Zhou Y, Poncelin de Raucourt G, Philippe H.

Syst Biol. 2005 Oct;54(5):743-57.

PMID:
16243762
11.

Convergence and the multidimensional niche.

Harmon LJ, Kolbe JJ, Cheverud JM, Losos JB.

Evolution. 2005 Feb;59(2):409-21.

PMID:
15807425
12.

Multidimensional vector space representation for convergent evolution and molecular phylogeny.

Kitazoe Y, Kishino H, Okabayashi T, Watabe T, Nakajima N, Okuhara Y, Kurihara Y.

Mol Biol Evol. 2005 Mar;22(3):704-15. Epub 2004 Nov 17. Erratum in: Mol Biol Evol. 2005 Apr;22(4):1159.

PMID:
15548750
13.
14.

Ancestral sequence reconstruction in primate mitochondrial DNA: compositional bias and effect on functional inference.

Krishnan NM, Seligmann H, Stewart CB, De Koning AP, Pollock DD.

Mol Biol Evol. 2004 Oct;21(10):1871-83. Epub 2004 Jun 30.

PMID:
15229290
15.

MrBayes 3: Bayesian phylogenetic inference under mixed models.

Ronquist F, Huelsenbeck JP.

Bioinformatics. 2003 Aug 12;19(12):1572-4.

PMID:
12912839
16.

When are phylogenetic analyses misled by convergence? A case study in Texas cave salamanders.

Wiens JJ, Chippindale PT, Hillis DM.

Syst Biol. 2003 Aug;52(4):501-14.

PMID:
12857641
17.

Exceptional convergent evolution in a virus.

Bull JJ, Badgett MR, Wichman HA, Huelsenbeck JP, Hillis DM, Gulati A, Ho C, Molineux IJ.

Genetics. 1997 Dec;147(4):1497-507.

18.

The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools.

Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG.

Nucleic Acids Res. 1997 Dec 15;25(24):4876-82.

19.

PAML: a program package for phylogenetic analysis by maximum likelihood.

Yang Z.

Comput Appl Biosci. 1997 Oct;13(5):555-6. No abstract available.

PMID:
9367129
20.

Detection of convergent and parallel evolution at the amino acid sequence level.

Zhang J, Kumar S.

Mol Biol Evol. 1997 May;14(5):527-36.

PMID:
9159930

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