메뉴 건너뛰기




Volumn 22, Issue 14, 2006, Pages

Automatic clustering of orthologs and inparalogs shared by multiple proteomes

Author keywords

[No Author keywords available]

Indexed keywords

PROTEOME;

EID: 33747892409     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/btl213     Document Type: Conference Paper
Times cited : (209)

References (27)
  • 4
    • 33644787447 scopus 로고    scopus 로고
    • OrthoMCL-DB: Querying a comprehensive multi-species collection of ortholog groups
    • Jan 1 (Database issue)
    • Chen,F., Mackey,A.J., Stoeckert,C.J.Jr and Roos,D.S. (2006) OrthoMCL-DB: querying a comprehensive multi-species collection of ortholog groups. Nucleic Acids Res. Jan 1; 34, (Database issue):D363-8.
    • (2006) Nucleic Acids Res. , vol.34
    • Chen, F.1    Mackey, A.J.2    Stoeckert Jr., C.J.3    Roos, D.S.4
  • 6
    • 27844438226 scopus 로고    scopus 로고
    • Genome-scale evidence of the nematode-arthropod clade
    • Epub 2005 Apr 28
    • Dopazo,H and Dopazo,J. (2005) Genome-scale evidence of the nematode-arthropod clade. Genome Biol.; 6(5), R41. Epub 2005 Apr 28.
    • (2005) Genome Biol. , vol.6 , Issue.5
    • Dopazo, H.1    Dopazo, J.2
  • 7
    • 0035578168 scopus 로고    scopus 로고
    • Comparing nuclear receptors in worms, flies and humans
    • Review
    • Enmark,E., Gustafsson,J.A. (2001) Comparing nuclear receptors in worms, flies and humans. Trends Pharmacol Sci. 22(12), 611-5. Review.
    • (2001) Trends Pharmacol Sci. , vol.22 , Issue.12 , pp. 611-615
    • Enmark, E.1    Gustafsson, J.A.2
  • 8
    • 0014800108 scopus 로고
    • Distinguishing homologous from analogous proteins
    • Fitch,W.M. (1970) Distinguishing homologous from analogous proteins. Syst. Zool. 19, 99-113.
    • (1970) Syst. Zool. , vol.19 , pp. 99-113
    • Fitch, W.M.1
  • 9
    • 0034178257 scopus 로고    scopus 로고
    • Homology: A personal view on some of the problems
    • Fitch,W.M. (2000) Homology: A personal view on some of the problems. Trends Genet. 16, 227-231.
    • (2000) Trends Genet. , vol.16 , pp. 227-231
    • Fitch, W.M.1
  • 10
    • 0345107239 scopus 로고    scopus 로고
    • Selection in the evolution of gene duplications
    • RESEARCH0008. Epub 2002 Jan 14
    • Kondrashov,F.A., Rogozin,I.B., Wolf,Y.I., Koonin,E.V. (2002) Selection in the evolution of gene duplications. Genome Biol., 3(2), RESEARCH0008. Epub 2002 Jan 14.
    • (2002) Genome Biol. , vol.3 , Issue.2
    • Kondrashov, F.A.1    Rogozin, I.B.2    Wolf, Y.I.3    Koonin, E.V.4
  • 12
    • 0036066765 scopus 로고    scopus 로고
    • The role of lineage-specific gene family expansion in the evolution of eukaryotes
    • Lespinet,O., Wolf,Y.I., Koonin,E.V. and Aravind,L. (2002) The role of lineage-specific gene family expansion in the evolution of eukaryotes. Genome Res. 12(7), 1048-59.
    • (2002) Genome Res. , vol.12 , Issue.7 , pp. 1048-1059
    • Lespinet, O.1    Wolf, Y.I.2    Koonin, E.V.3    Aravind, L.4
  • 13
    • 0141519279 scopus 로고    scopus 로고
    • OrthoMCL: Identification of ortholog groups for eukaryotic genomes
    • Li,L., Stoeckert,C.J., Roos,D.S. (2003) OrthoMCL: Identification of ortholog groups for eukaryotic genomes Genome Res. 13(9), 2178-89.
    • (2003) Genome Res. , vol.13 , Issue.9 , pp. 2178-2189
    • Li, L.1    Stoeckert, C.J.2    Roos, D.S.3
  • 14
    • 0035224757 scopus 로고    scopus 로고
    • Comparison of complete nuclear receptor sets from the human, Caenorhabditis elegans and Drosophila genomes
    • RESEARCH0029. Epub 2001 Jul 24
    • Maglich,J.M., Sluder,A., Guan,X., Shi,Y., McKee,D.D., Carrick,K., Kamdar,K., Willson,T.M. and Moore,I.T. (2001) Comparison of complete nuclear receptor sets from the human, Caenorhabditis elegans and Drosophila genomes. Genome Biol. 2(8), RESEARCH0029. Epub 2001 Jul 24.
    • (2001) Genome Biol. , vol.2 , Issue.8
    • Maglich, J.M.1    Sluder, A.2    Guan, X.3    Shi, Y.4    McKee, D.D.5    Carrick, K.6    Kamdar, K.7    Willson, T.M.8    Moore, I.T.9
  • 15
    • 0031877893 scopus 로고    scopus 로고
    • Large-scale taxonomic profiling of eukaryotic model organisms: A comparison of orthologous proteins encoded by the human, fly, nematode, and yeast genomes
    • Mushegian,A.R., Garey,J.R., Martin,J. and Liu,L.X. (1998) Large-scale taxonomic profiling of eukaryotic model organisms: A comparison of orthologous proteins encoded by the human, fly, nematode, and yeast genomes. Genome Res. 8, 590-598.
    • (1998) Genome Res. , vol.8 , pp. 590-598
    • Mushegian, A.R.1    Garey, J.R.2    Martin, J.3    Liu, L.X.4
  • 16
    • 17744379783 scopus 로고    scopus 로고
    • The Opisthokonta and the Ecdysozoa may not be clades: Stronger support for the grouping of plant and animal than for animal and fungi and stronger support for the Coelomata than Ecdysozoa
    • Epub 2005 Feb 9
    • Philip,G.K., Creevey,C.J. and McInerney,J.O. (2005) The Opisthokonta and the Ecdysozoa may not be clades: Stronger support for the grouping of plant and animal than for animal and fungi and stronger support for the Coelomata than Ecdysozoa. Mol. Biol. Evol. 22(5), 1175-84. Epub 2005 Feb 9.
    • (2005) Mol. Biol. Evol. , vol.22 , Issue.5 , pp. 1175-1184
    • Philip, G.K.1    Creevey, C.J.2    McInerney, J.O.3
  • 17
    • 0035861990 scopus 로고    scopus 로고
    • Automatic clustering of orthologs and in-paralogs from pairwise species comparisons
    • Remm,M., Storm,C.E. and Sonnhammer,E.L.L. (2001) Automatic clustering of orthologs and in-paralogs from pairwise species comparisons. J. Mol. Biol. 314, 1041-1052.
    • (2001) J. Mol. Biol. , vol.314 , pp. 1041-1052
    • Remm, M.1    Storm, C.E.2    Sonnhammer, E.L.L.3
  • 19
    • 0036889686 scopus 로고    scopus 로고
    • Orthology, paralogy and proposed classification for paralog subtypes
    • Sonnhammer,E.L.L. and Koonin,E.V. (2002) Orthology, paralogy and proposed classification for paralog subtypes. Trends Genet. 18, 619-620.
    • (2002) Trends Genet. , vol.18 , pp. 619-620
    • Sonnhammer, E.L.L.1    Koonin, E.V.2
  • 20
    • 0142028973 scopus 로고    scopus 로고
    • Comprehensive analysis of orthologous protein domains using the HOPS database
    • Storm,C.E. and Sonnhammer,E.L.L. (2003) Comprehensive analysis of orthologous protein domains using the HOPS database. Genome Res. 13(10), 2353-62.
    • (2003) Genome Res. , vol.13 , Issue.10 , pp. 2353-2362
    • Storm, C.E.1    Sonnhammer, E.L.L.2
  • 21
    • 0030660581 scopus 로고    scopus 로고
    • A genomic perspective on protein families
    • Tatusov,R.L., Koonin,E.V. and Lipman,D.J. (1997) A genomic perspective on protein families. Science, 278, 631-637.
    • (1997) Science , vol.278 , pp. 631-637
    • Tatusov, R.L.1    Koonin, E.V.2    Lipman, D.J.3
  • 23
    • 0027968068 scopus 로고
    • CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
    • Nov 11
    • Thompson,J.D., Higgins,D.G. and Gibson,T.J. (1994) CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. Nov 11; 22(22), 4673-80.
    • (1994) Nucleic Acids Res. , vol.22 , Issue.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 24
    • 0028825369 scopus 로고
    • Divergent seven transmembrane receptors are candidate chemosensory receptors in C. elegans
    • Oct 20
    • Troemel,E.R., Chou,J.H., Dwyer,N.D., Colbert,H.A. and Bargmann,C.I. (1995) Divergent seven transmembrane receptors are candidate chemosensory receptors in C. elegans. Cell, Oct 20; 83(2), 207-18.
    • (1995) Cell , vol.83 , Issue.2 , pp. 207-218
    • Troemel, E.R.1    Chou, J.H.2    Dwyer, N.D.3    Colbert, H.A.4    Bargmann, C.I.5
  • 25
    • 0032835248 scopus 로고    scopus 로고
    • Human and nematode orthologs - Lessons from the analysis of 1800 human genes and the proteome of Caenorhabditis elegans
    • Sep 30
    • Wheelan,S.J., Boguski,M.S., Duret,L., Makalowski,W. (1999) Human and nematode orthologs - lessons from the analysis of 1800 human genes and the proteome of Caenorhabditis elegans. Gene, Sep 30; 238(1), 163-70.
    • (1999) Gene , vol.238 , Issue.1 , pp. 163-170
    • Wheelan, S.J.1    Boguski, M.S.2    Duret, L.3    Makalowski, W.4
  • 27
    • 0034739818 scopus 로고    scopus 로고
    • Investigating 42 candidate orthologous protein groups by molecular evolutionary analysis on genome scale
    • Xie T. and Ding D. (2000) Investigating 42 candidate orthologous protein groups by molecular evolutionary analysis on genome scale. Gene, 261, 305-310.
    • (2000) Gene , vol.261 , pp. 305-310
    • Xie, T.1    Ding, D.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.