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Visualization of the phylogenetic content of five genomes using dekapentagonal maps.

Zhaxybayeva O, Hamel L, Raymond J, Gogarten JP.

Genome Biol. 2004;5(3):R20. Epub 2004 Feb 16.PMID: 15003123 [PubMed - indexed for MEDLINE]Related articlesFree article

PentaPlot: a software tool for the illustration of genome mosaicism.

Hamel L, Zhaxybayeva O, Gogarten JP.

BMC Bioinformatics. 2005 Jun 6;6:139.PMID: 15938752 [PubMed - indexed for MEDLINE]Related articlesFree article

Whole-genome analysis of photosynthetic prokaryotes.

Raymond J, Zhaxybayeva O, Gogarten JP, Gerdes SY, Blankenship RE.

Science. 2002 Nov 22;298(5598):1616-20.PMID: 12446909 [PubMed - indexed for MEDLINE]Related articlesFree article

Genome trees and the nature of genome evolution.

Snel B, Huynen MA, Dutilh BE.

Annu Rev Microbiol. 2005;59:191-209. Review.PMID: 16153168 [PubMed - indexed for MEDLINE]Related articles

A database of phylogenetically atypical genes in archaeal and bacterial genomes, identified using the DarkHorse algorithm.

Podell S, Gaasterland T, Allen EE.

BMC Bioinformatics. 2008 Oct 7;9:419.PMID: 18840280 [PubMed - indexed for MEDLINE]Related articlesFree article

Evolution of photosynthetic prokaryotes: a maximum-likelihood mapping approach.

Raymond J, Zhaxybayeva O, Gogarten JP, Blankenship RE.

Philos Trans R Soc Lond B Biol Sci. 2003 Jan 29;358(1429):223-30.PMID: 12594930 [PubMed - indexed for MEDLINE]Related articlesFree article

The cobweb of life revealed by genome-scale estimates of horizontal gene transfer.

Ge F, Wang LS, Kim J.

PLoS Biol. 2005 Oct;3(10):e316. Epub 2005 Aug 30.PMID: 16122348 [PubMed - indexed for MEDLINE]Related articlesFree article

The balance of driving forces during genome evolution in prokaryotes.

Kunin V, Ouzounis CA.

Genome Res. 2003 Jul;13(7):1589-94.PMID: 12840037 [PubMed - indexed for MEDLINE]Related articlesFree article

Whole genome-based phylogenetic analysis of free-living microorganisms.

Fitz-Gibbon ST, House CH.

Nucleic Acids Res. 1999 Nov 1;27(21):4218-22.PMID: 10518613 [PubMed - indexed for MEDLINE]Related articlesFree article

Phylogenetic analyses of cyanobacterial genomes: quantification of horizontal gene transfer events.

Zhaxybayeva O, Gogarten JP, Charlebois RL, Doolittle WF, Papke RT.

Genome Res. 2006 Sep;16(9):1099-108. Epub 2006 Aug 9.PMID: 16899658 [PubMed - indexed for MEDLINE]Related articlesFree article

Analysis of codon usage patterns of bacterial genomes using the self-organizing map.

Wang HC, Badger J, Kearney P, Li M.

Mol Biol Evol. 2001 May;18(5):792-800.PMID: 11319263 [PubMed - indexed for MEDLINE]Related articlesFree article

The consistent phylogenetic signal in genome trees revealed by reducing the impact of noise.

Dutilh BE, Huynen MA, Bruno WJ, Snel B.

J Mol Evol. 2004 May;58(5):527-39.PMID: 15170256 [PubMed - indexed for MEDLINE]Related articles

HGT-DB: a database of putative horizontally transferred genes in prokaryotic complete genomes.

Garcia-Vallve S, Guzman E, Montero MA, Romeu A.

Nucleic Acids Res. 2003 Jan 1;31(1):187-9.PMID: 12519978 [PubMed - indexed for MEDLINE]Related articlesFree article

The power of phylogenetic approaches to detect horizontally transferred genes.

Poptsova MS, Gogarten JP.

BMC Evol Biol. 2007 Mar 21;7:45.PMID: 17376230 [PubMed - indexed for MEDLINE]Related articlesFree article

Using homolog groups to create a whole-genomic tree of free-living organisms: an update.

House CH, Fitz-Gibbon ST.

J Mol Evol. 2002 Apr;54(4):539-47.PMID: 11956692 [PubMed - indexed for MEDLINE]Related articles

An improved probability mapping approach to assess genome mosaicism.

Zhaxybayeva O, Gogarten JP.

BMC Genomics. 2003 Sep 15;4(1):37.PMID: 12974984 [PubMed - indexed for MEDLINE]Related articlesFree article

Highways of gene sharing in prokaryotes.

Beiko RG, Harlow TJ, Ragan MA.

Proc Natl Acad Sci U S A. 2005 Oct 4;102(40):14332-7. Epub 2005 Sep 21.PMID: 16176988 [PubMed - indexed for MEDLINE]Related articlesFree article

The ring of life provides evidence for a genome fusion origin of eukaryotes.

Rivera MC, Lake JA.

Nature. 2004 Sep 9;431(7005):152-5.PMID: 15356622 [PubMed - indexed for MEDLINE]Related articles

Contribution of horizontal gene transfer to the evolution of Saccharomyces cerevisiae.

Hall C, Brachat S, Dietrich FS.

Eukaryot Cell. 2005 Jun;4(6):1102-15.PMID: 15947202 [PubMed - indexed for MEDLINE]Related articlesFree article

[Identification of the horizontal gene transfer based on phylogenetic data]

V'iugin VV, Gel'fand MS, Liubetskiĭ VA.

Mol Biol (Mosk). 2003 Jul-Aug;37(4):674-87. Russian. PMID: 12942641 [PubMed - indexed for MEDLINE]Related articles