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Results: 1 to 20 of 124

Similar articles for PubMed (Select 21690100)

1.

Computational methods for Gene Orthology inference.

Kristensen DM, Wolf YI, Mushegian AR, Koonin EV.

Brief Bioinform. 2011 Sep;12(5):379-91. doi: 10.1093/bib/bbr030. Epub 2011 Jun 19.

2.
3.

Automatic clustering of orthologs and in-paralogs from pairwise species comparisons.

Remm M, Storm CE, Sonnhammer EL.

J Mol Biol. 2001 Dec 14;314(5):1041-52.

PMID:
11743721
4.

Genome trees constructed using five different approaches suggest new major bacterial clades.

Wolf YI, Rogozin IB, Grishin NV, Tatusov RL, Koonin EV.

BMC Evol Biol. 2001 Oct 20;1:8.

5.

Integrating Sequence Evolution into Probabilistic Orthology Analysis.

Ullah I, Sjöstrand J, Andersson P, Sennblad B, Lagergren J.

Syst Biol. 2015 Jun 30. pii: syv044. [Epub ahead of print]

PMID:
26130236
6.

Identification of mammalian orthologs using local synteny.

Jun J, Mandoiu II, Nelson CE.

BMC Genomics. 2009 Dec 23;10:630. doi: 10.1186/1471-2164-10-630.

7.

Inferring orthology and paralogy.

Altenhoff AM, Dessimoz C.

Methods Mol Biol. 2012;855:259-79. doi: 10.1007/978-1-61779-582-4_9. Review.

PMID:
22407712
8.

Phylogenetic and functional assessment of orthologs inference projects and methods.

Altenhoff AM, Dessimoz C.

PLoS Comput Biol. 2009 Jan;5(1):e1000262. doi: 10.1371/journal.pcbi.1000262. Epub 2009 Jan 16.

9.

Algorithms: simultaneous error-correction and rooting for gene tree reconciliation and the gene duplication problem.

Górecki P, Eulenstein O.

BMC Bioinformatics. 2012 Jun 25;13 Suppl 10:S14. doi: 10.1186/1471-2105-13-S10-S14.

10.

MultiMSOAR 2.0: an accurate tool to identify ortholog groups among multiple genomes.

Shi G, Peng MC, Jiang T.

PLoS One. 2011;6(6):e20892. doi: 10.1371/journal.pone.0020892. Epub 2011 Jun 21.

12.

Inferring hierarchical orthologous groups from orthologous gene pairs.

Altenhoff AM, Gil M, Gonnet GH, Dessimoz C.

PLoS One. 2013;8(1):e53786. doi: 10.1371/journal.pone.0053786. Epub 2013 Jan 14.

13.

A universal genomic coordinate translator for comparative genomics.

Zamani N, Sundström G, Meadows JR, Höppner MP, Dainat J, Lantz H, Haas BJ, Grabherr MG.

BMC Bioinformatics. 2014 Jun 30;15:227. doi: 10.1186/1471-2105-15-227.

14.

Efficient error correction algorithms for gene tree reconciliation based on duplication, duplication and loss, and deep coalescence.

Chaudhary R, Burleigh JG, Eulenstein O.

BMC Bioinformatics. 2012 Jun 25;13 Suppl 10:S11. doi: 10.1186/1471-2105-13-S10-S11.

15.

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.

16.
17.

Clusters of orthologous genes for 41 archaeal genomes and implications for evolutionary genomics of archaea.

Makarova KS, Sorokin AV, Novichkov PS, Wolf YI, Koonin EV.

Biol Direct. 2007 Nov 27;2:33.

18.
19.

Bayesian gene/species tree reconciliation and orthology analysis using MCMC.

Arvestad L, Berglund AC, Lagergren J, Sennblad B.

Bioinformatics. 2003;19 Suppl 1:i7-15.

20.

Evola: Ortholog database of all human genes in H-InvDB with manual curation of phylogenetic trees.

Matsuya A, Sakate R, Kawahara Y, Koyanagi KO, Sato Y, Fujii Y, Yamasaki C, Habara T, Nakaoka H, Todokoro F, Yamaguchi K, Endo T, Oota S, Makalowski W, Ikeo K, Suzuki Y, Hanada K, Hashimoto K, Hirai M, Iwama H, Saitou N, Hiraki AT, Jin L, Kaneko Y, Kanno M, Murakami K, Noda AO, Saichi N, Sanbonmatsu R, Suzuki M, Takeda J, Tanaka M, Gojobori T, Imanishi T, Itoh T.

Nucleic Acids Res. 2008 Jan;36(Database issue):D787-92. Epub 2007 Nov 3.

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