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Items: 1 to 20 of 136

1.

This Déjà vu feeling--analysis of multidomain protein evolution in eukaryotic genomes.

Zmasek CM, Godzik A.

PLoS Comput Biol. 2012;8(11):e1002701. doi: 10.1371/journal.pcbi.1002701. Epub 2012 Nov 15.

2.

Evolutionary versatility of eukaryotic protein domains revealed by their bigram networks.

Xie X, Jin J, Mao Y.

BMC Evol Biol. 2011 Aug 18;11:242. doi: 10.1186/1471-2148-11-242.

3.

Domain combinations in archaeal, eubacterial and eukaryotic proteomes.

Apic G, Gough J, Teichmann SA.

J Mol Biol. 2001 Jul 6;310(2):311-25.

PMID:
11428892
4.

Evolution of the PWWP-domain encoding genes in the plant and animal lineages.

Alvarez-Venegas R, Avramova Z.

BMC Evol Biol. 2012 Jun 26;12:101.

5.

Comparative pair-wise domain-combinations for screening the clade specific domain-architectures in metazoan genomes.

Kawashima S, Kawashima T, Putnam NH, Rokhsar DS, Wada H, Kanehisa M.

Genome Inform. 2007;19:50-60.

PMID:
18546504
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7.

A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes.

Koonin EV, Fedorova ND, Jackson JD, Jacobs AR, Krylov DM, Makarova KS, Mazumder R, Mekhedov SL, Nikolskaya AN, Rao BS, Rogozin IB, Smirnov S, Sorokin AV, Sverdlov AV, Vasudevan S, Wolf YI, Yin JJ, Natale DA.

Genome Biol. 2004;5(2):R7. Epub 2004 Jan 15.

8.

The relationship between domain duplication and recombination.

Vogel C, Teichmann SA, Pereira-Leal J.

J Mol Biol. 2005 Feb 11;346(1):355-65. Epub 2004 Dec 23.

PMID:
15663950
9.

Genome and protein evolution in eukaryotes.

Copley RR, Letunic I, Bork P.

Curr Opin Chem Biol. 2002 Feb;6(1):39-45. Review.

PMID:
11827821
10.

Genomic and structural aspects of protein evolution.

Chothia C, Gough J.

Biochem J. 2009 Apr 1;419(1):15-28. doi: 10.1042/BJ20090122. Review.

PMID:
19272021
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Comprehensive genome analysis of 203 genomes provides structural genomics with new insights into protein family space.

Marsden RL, Lee D, Maibaum M, Yeats C, Orengo CA.

Nucleic Acids Res. 2006 Feb 15;34(3):1066-80. Print 2006.

15.

Regulatory potential, phyletic distribution and evolution of ancient, intracellular small-molecule-binding domains.

Anantharaman V, Koonin EV, Aravind L.

J Mol Biol. 2001 Apr 13;307(5):1271-92.

PMID:
11292341
16.

Global phylogeny determined by the combination of protein domains in proteomes.

Wang M, Caetano-Anollés G.

Mol Biol Evol. 2006 Dec;23(12):2444-54. Epub 2006 Sep 13.

17.

Protein domain organisation: adding order.

Kummerfeld SK, Teichmann SA.

BMC Bioinformatics. 2009 Jan 29;10:39. doi: 10.1186/1471-2105-10-39.

18.

An insight into domain combinations.

Apic G, Gough J, Teichmann SA.

Bioinformatics. 2001;17 Suppl 1:S83-9.

19.

The COG database: an updated version includes eukaryotes.

Tatusov RL, Fedorova ND, Jackson JD, Jacobs AR, Kiryutin B, Koonin EV, Krylov DM, Mazumder R, Mekhedov SL, Nikolskaya AN, Rao BS, Smirnov S, Sverdlov AV, Vasudevan S, Wolf YI, Yin JJ, Natale DA.

BMC Bioinformatics. 2003 Sep 11;4:41. Epub 2003 Sep 11.

20.

Evolution of protein domain promiscuity in eukaryotes.

Basu MK, Carmel L, Rogozin IB, Koonin EV.

Genome Res. 2008 Mar;18(3):449-61. doi: 10.1101/gr.6943508. Epub 2008 Jan 29.

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