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Items: 1 to 20 of 29

1.

Large-scale assignment of orthology: back to phylogenetics?

Gabaldón T.

Genome Biol. 2008 Oct 30;9(10):235. doi: 10.1186/gb-2008-9-10-235. Review.

2.

PhylomeDB: a database for genome-wide collections of gene phylogenies.

Huerta-Cepas J, Bueno A, Dopazo J, Gabaldón T.

Nucleic Acids Res. 2008 Jan;36(Database issue):D491-6. Epub 2007 Oct 25.

3.
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5.

The human phylome.

Huerta-Cepas J, Dopazo H, Dopazo J, Gabaldón T.

Genome Biol. 2007;8(6):R109.

6.

Supertrees disentangle the chimerical origin of eukaryotic genomes.

Pisani D, Cotton JA, McInerney JO.

Mol Biol Evol. 2007 Aug;24(8):1752-60. Epub 2007 May 15.

PMID:
17504772
7.

High-resolution species trees without concatenation.

Edwards SV, Liu L, Pearl DK.

Proc Natl Acad Sci U S A. 2007 Apr 3;104(14):5936-41. Epub 2007 Mar 28.

8.

Orthology prediction at scalable resolution by phylogenetic tree analysis.

van der Heijden RT, Snel B, van Noort V, Huynen MA.

BMC Bioinformatics. 2007 Mar 8;8:83.

9.

Assessment of phylogenomic and orthology approaches for phylogenetic inference.

Dutilh BE, van Noort V, van der Heijden RT, Boekhout T, Snel B, Huynen MA.

Bioinformatics. 2007 Apr 1;23(7):815-24. Epub 2007 Jan 19.

PMID:
17237036
10.

Phylogenomics reveal a robust fungal tree of life.

Kuramae EE, Robert V, Snel B, Weiss M, Boekhout T.

FEMS Yeast Res. 2006 Dec;6(8):1213-20.

11.

A fungal phylogeny based on 42 complete genomes derived from supertree and combined gene analysis.

Fitzpatrick DA, Logue ME, Stajich JE, Butler G.

BMC Evol Biol. 2006 Nov 22;6:99.

12.

Bayesian estimation of concordance among gene trees.

Ané C, Larget B, Baum DA, Smith SD, Rokas A.

Mol Biol Evol. 2007 Feb;24(2):412-26. Epub 2006 Nov 9. Erratum in: Mol Biol Evol. 2007 Jul;24(7):1575.

PMID:
17095535
13.

The tree of one percent.

Dagan T, Martin W.

Genome Biol. 2006;7(10):118. Epub 2006 Nov 1.

14.

Optimal gene trees from sequences and species trees using a soft interpretation of parsimony.

Berglund-Sonnhammer AC, Steffansson P, Betts MJ, Liberles DA.

J Mol Evol. 2006 Aug;63(2):240-50. Epub 2006 Jul 7.

PMID:
16830091
15.

Approximate likelihood-ratio test for branches: A fast, accurate, and powerful alternative.

Anisimova M, Gascuel O.

Syst Biol. 2006 Aug;55(4):539-52.

PMID:
16785212
16.

A phylogenomic analysis of the Ascomycota.

Robbertse B, Reeves JB, Schoch CL, Spatafora JW.

Fungal Genet Biol. 2006 Oct;43(10):715-25. Epub 2006 Jun 15.

PMID:
16781175
17.

Visualizing syntenic relationships among the hemiascomycetes with the Yeast Gene Order Browser.

Byrne KP, Wolfe KH.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D452-5.

18.

Genomics of the fungal kingdom: insights into eukaryotic biology.

Galagan JE, Henn MR, Ma LJ, Cuomo CA, Birren B.

Genome Res. 2005 Dec;15(12):1620-31. Review. Erratum in: Genome Res. 2006 Feb;16(2):304.

19.

Phylogenomics and the reconstruction of the tree of life.

Delsuc F, Brinkmann H, Philippe H.

Nat Rev Genet. 2005 May;6(5):361-75. Review.

20.

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