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Volumn 21, Issue 4, 2005, Pages 464-470

Improving genome annotations using phylogenetic profile anomaly detection

Author keywords

[No Author keywords available]

Indexed keywords

ADENOSINE DEAMINASE; DNA TOPOISOMERASE; METHIONYL AMINOPEPTIDASE; RIBONUCLEASE P; RIBOSOME PROTEIN;

EID: 14644418424     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/bti027     Document Type: Article
Times cited : (21)

References (31)
  • 1
    • 2142859937 scopus 로고    scopus 로고
    • Re-annotation of genome microbial coding-sequences: Finding new genes and inaccurately annotated genes
    • Bocs,S., Danchin,A. and Médigue,C. (2002) Re-annotation of genome microbial coding-sequences: finding new genes and inaccurately annotated genes. BMC Bioinformatics, 3, 5.
    • (2002) BMC Bioinformatics , vol.3 , pp. 5
    • Bocs, S.1    Danchin, A.2    Médigue, C.3
  • 2
    • 0033119399 scopus 로고    scopus 로고
    • Errors in genome annotation
    • Brenner,S.E. (1999) Errors in genome annotation. Trends Genet., 15, 132-133.
    • (1999) Trends Genet. , vol.15 , pp. 132-133
    • Brenner, S.E.1
  • 3
    • 0026374073 scopus 로고
    • Bayesian networks without tears
    • Charniak,E. (1991) Bayesian networks without tears. AI Mag., 12, 50-63.
    • (1991) AI Mag. , vol.12 , pp. 50-63
    • Charniak, E.1
  • 5
    • 0013237073 scopus 로고    scopus 로고
    • Introduction to inference for Bayesian networks
    • Jordan,M.I. (ed.), Kluwer Academic Publishers, Dordrecht, The Netherlands
    • Cowell,R. (1998) Introduction to inference for Bayesian networks. In Jordan,M.I. (ed.), Learning in Graphical Models. Kluwer Academic Publishers, Dordrecht, The Netherlands, pp. 9-26.
    • (1998) Learning in Graphical Models , pp. 9-26
    • Cowell, R.1
  • 6
    • 0003064380 scopus 로고
    • Applications of a general propagation algorithm for probabilistic expert systems
    • Dawid,A.P. (1992) Applications of a general propagation algorithm for probabilistic expert systems. Stat. Comput., 2, 25-26.
    • (1992) Stat. Comput. , vol.2 , pp. 25-26
    • Dawid, A.P.1
  • 8
    • 0035424599 scopus 로고    scopus 로고
    • Intrinsic errors in genome annotation
    • Devos,D. and Valencia,A. (2001) Intrinsic errors in genome annotation. Trends Genet., 17, 429-431.
    • (2001) Trends Genet. , vol.17 , pp. 429-431
    • Devos, D.1    Valencia, A.2
  • 10
    • 0032242111 scopus 로고    scopus 로고
    • Microbial genescapes: Phyletic and functional patterns of ORF distribution among prokaryotes
    • Gaasterland,T. and Ragan,M.A. (1998) Microbial genescapes: phyletic and functional patterns of ORF distribution among prokaryotes. Microb. Comp. Genomics, 3, 199-217.
    • (1998) Microb. Comp. Genomics , vol.3 , pp. 199-217
    • Gaasterland, T.1    Ragan, M.A.2
  • 11
    • 0000365320 scopus 로고
    • Fitting the gene lineage into its species lineage: A parsimony strategy illustrated by cladograms constructed from globin sequences
    • Goodman,M., Czelusniak,J., Moore,G.W. and Matsuda,G. (1979) Fitting the gene lineage into its species lineage: a parsimony strategy illustrated by cladograms constructed from globin sequences. Syst. Zool., 28, 132-163.
    • (1979) Syst. Zool. , vol.28 , pp. 132-163
    • Goodman, M.1    Czelusniak, J.2    Moore, G.W.3    Matsuda, G.4
  • 13
    • 3042595153 scopus 로고    scopus 로고
    • Patterns of bacterial gene movement
    • Hao,W. and Golding,G.B. (2004) Patterns of bacterial gene movement. Mol. Biol. Evol., 21, 1294-1307.
    • (2004) Mol. Biol. Evol. , vol.21 , pp. 1294-1307
    • Hao, W.1    Golding, G.B.2
  • 14
    • 0035221560 scopus 로고    scopus 로고
    • Using graphical models and genomic expression data to statistically validate models of genetic regulatory networks
    • Hartemink,A.J., Gifford,D.K., Jaakkola,T.S. and Young,R.A. (2001) Using graphical models and genomic expression data to statistically validate models of genetic regulatory networks. Pac. Symp. Biocomput., 6, 422-433.
    • (2001) Pac. Symp. Biocomput. , vol.6 , pp. 422-433
    • Hartemink, A.J.1    Gifford, D.K.2    Jaakkola, T.S.3    Young, R.A.4
  • 15
    • 34249761849 scopus 로고
    • Learning Bayesian networks: The combination of knowledge and statistical data
    • Heckerman,D., Geiger,D. and Chickering,D. (1995) Learning Bayesian networks: the combination of knowledge and statistical data. Machine Learning, 20, 197-243.
    • (1995) Machine Learning , vol.20 , pp. 197-243
    • Heckerman, D.1    Geiger, D.2    Chickering, D.3
  • 17
    • 0035860545 scopus 로고    scopus 로고
    • Pathway databases: A case study in computational symbolic theories
    • Karp,P.D. (2001) Pathway databases: a case study in computational symbolic theories. Science, 293, 2040-2044.
    • (2001) Science , vol.293 , pp. 2040-2044
    • Karp, P.D.1
  • 18
    • 2942622384 scopus 로고    scopus 로고
    • Algorithms for computing parsimonious evolutionary scenarios for genome evolution, the last universal common ancestor and dominance of horizontal gene transfer in the evolution of prokaryotes
    • Mirkin,B.G., Fenner,T.I., Galperin,M.Y. and Koonin,E.V (2003) Algorithms for computing parsimonious evolutionary scenarios for genome evolution, the last universal common ancestor and dominance of horizontal gene transfer in the evolution of prokaryotes. BMC Evol. Biol., 3, 2.
    • (2003) BMC Evol. Biol. , vol.3 , pp. 2
    • Mirkin, B.G.1    Fenner, T.I.2    Galperin, M.Y.3    Koonin, E.V.4
  • 19
    • 0003229133 scopus 로고    scopus 로고
    • The Bayes Net Toolbox for Matlab
    • Murphy,K.P. (2001) The Bayes Net Toolbox for Matlab. Comput. Sci. Stat., 33, 1-20.
    • (2001) Comput. Sci. Stat. , vol.33 , pp. 1-20
    • Murphy, K.P.1
  • 20
    • 0034530835 scopus 로고    scopus 로고
    • Using the COG database to improve gene recognition in complete genomes
    • Natale,D.A., Galperin,M.Y., Tatusov,R.L. and Koonin,E.V. (2000) Using the COG database to improve gene recognition in complete genomes. Genetica, 108, 9-17.
    • (2000) Genetica , vol.108 , pp. 9-17
    • Natale, D.A.1    Galperin, M.Y.2    Tatusov, R.L.3    Koonin, E.V.4
  • 21
    • 12044253257 scopus 로고
    • Maps between trees and cladistic analysis of historical associations among genes, organisms, and areas
    • Page,R.D.M. (1994) Maps between trees and cladistic analysis of historical associations among genes, organisms, and areas. Syst. Biol., 43, 58-77.
    • (1994) Syst. Biol. , vol.43 , pp. 58-77
    • Page, R.D.M.1
  • 22
    • 0036086784 scopus 로고    scopus 로고
    • Evaluation of computational metabolic-pathway predictions for Heliobacter pylori
    • Paley,S.M. and Karp,P.D. (2001) Evaluation of computational metabolic-pathway predictions for Heliobacter pylori. Bioinformatics 18, 715-724.
    • (2001) Bioinformatics , vol.18 , pp. 715-724
    • Paley, S.M.1    Karp, P.D.2
  • 24
    • 18144442687 scopus 로고    scopus 로고
    • Inferring subnetworks from perturbed expression profiles
    • Pe'er,D., Regev,A., Elidan,G. and Friedman,N. (2001) Inferring subnetworks from perturbed expression profiles. Bioinformatics, 17(Suppl. 1), S215-S224.
    • (2001) Bioinformatics , vol.17 , Issue.SUPPL. 1
    • Pe'er, D.1    Regev, A.2    Elidan, G.3    Friedman, N.4
  • 26
    • 0037350415 scopus 로고    scopus 로고
    • The phylogenetic extent of metabolic enzymes and pathways
    • Peregrin-Alvarez,J.P., Tsoka,S. and Ouzounis,C.A. (2003) The phylogenetic extent of metabolic enzymes and pathways. Genome Res., 13, 422-427.
    • (2003) Genome Res. , vol.13 , pp. 422-427
    • Peregrin-Alvarez, J.P.1    Tsoka, S.2    Ouzounis, C.A.3
  • 27
    • 0141993704 scopus 로고    scopus 로고
    • A gene-coexpression network for global discovery of conserved genetic modules
    • Stuart,J.M., Segal,E., Koller,D. and Kim,S.K. (2003) A gene-coexpression network for global discovery of conserved genetic modules. Science, 302, 249-255.
    • (2003) Science , vol.302 , pp. 249-255
    • Stuart, J.M.1    Segal, E.2    Koller, D.3    Kim, S.K.4
  • 28
    • 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
  • 30
    • 0038492417 scopus 로고    scopus 로고
    • A Bayesian framework for combining heterogeneous data sources for gene function prediction
    • (in Saccharomyces cerevisiae)
    • Troyanskaya,O.G., Dolinski,K., Owen,A.B., Altman,R.B. and Botstein,D. (2003) A Bayesian framework for combining heterogeneous data sources for gene function prediction (in Saccharomyces cerevisiae). Proc. Natl Acad. Sci., USA, 100, 8348-8353.
    • (2003) Proc. Natl. Acad. Sci. USA , vol.100 , pp. 8348-8353
    • Troyanskaya, O.G.1    Dolinski, K.2    Owen, A.B.3    Altman, R.B.4    Botstein, D.5
  • 31
    • 0037057376 scopus 로고    scopus 로고
    • Genomic functional annotation using co-evolution profiles of gene clusters
    • Zheng,Y., Roberts,R.J. and Kasif,S. (2002) Genomic functional annotation using co-evolution profiles of gene clusters. Genome Biol. 3, RESEARCH0060.
    • (2002) Genome Biol. , vol.3
    • Zheng, Y.1    Roberts, R.J.2    Kasif, S.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.