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Volumn 30, Issue 3, 2006, Pages 233-240

Operon prediction based on SVM

Author keywords

Feature; Operon; SVM

Indexed keywords

BACTERIOLOGY; BENCHMARKING; ESCHERICHIA COLI; VECTORS;

EID: 33646869492     PISSN: 14769271     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.compbiolchem.2006.03.002     Document Type: Article
Times cited : (30)

References (25)
  • 4
    • 0042622243 scopus 로고    scopus 로고
    • SVM-Prot: web-based support vector machine software for functional classification of a protein from its primary sequence
    • Cai C.Z., Han L.Y., Ji Z.L., Chen X., and Chen Y.Z. SVM-Prot: web-based support vector machine software for functional classification of a protein from its primary sequence. Nucl. Acids Res. 31 (2003) 3692-3697
    • (2003) Nucl. Acids Res. , vol.31 , pp. 3692-3697
    • Cai, C.Z.1    Han, L.Y.2    Ji, Z.L.3    Chen, X.4    Chen, Y.Z.5
  • 5
    • 0036007085 scopus 로고    scopus 로고
    • Prediction of protein structural classes by support vector machines
    • Cai Y.D., Liu X.J., Xu X.b., and Chou K.C. Prediction of protein structural classes by support vector machines. Comput. Chem. 26 (2002) 293-296
    • (2002) Comput. Chem. , vol.26 , pp. 293-296
    • Cai, Y.D.1    Liu, X.J.2    Xu, X.b.3    Chou, K.C.4
  • 6
    • 0842326624 scopus 로고    scopus 로고
    • Application of SVM to predict membrane protein types
    • Cai Y.D., Ricardo P.W., Jen C.H., and Chou K.C. Application of SVM to predict membrane protein types. J. Theor. Biol. 226 (2004) 373-376
    • (2004) J. Theor. Biol. , vol.226 , pp. 373-376
    • Cai, Y.D.1    Ricardo, P.W.2    Jen, C.H.3    Chou, K.C.4
  • 7
    • 33646876711 scopus 로고    scopus 로고
    • Chang, C.-C., Lin, C.-J., 2001. LIBSVM: a library for support vector machines. Software available at http://www.csie.ntu.edu.tw/∼cjlin/libsvm.
  • 9
    • 0041358614 scopus 로고    scopus 로고
    • Discovery of uncharacterized cellular systems by genome-wide analysis of functional linkages
    • Date S.V., and Marcotte E.M. Discovery of uncharacterized cellular systems by genome-wide analysis of functional linkages. Nat. Biotech. 21 (2003) 1055-1062
    • (2003) Nat. Biotech. , vol.21 , pp. 1055-1062
    • Date, S.V.1    Marcotte, E.M.2
  • 10
    • 20444505605 scopus 로고    scopus 로고
    • A universally applicable method of operon map prediction on minimally annotated genomes using conserved genomic context
    • Edwards M.T., Rison S.C.G., Stoker N.G., and Wernisch L. A universally applicable method of operon map prediction on minimally annotated genomes using conserved genomic context. Nucl. Acids Res. 33 (2005) 3253-3262
    • (2005) Nucl. Acids Res. , vol.33 , pp. 3253-3262
    • Edwards, M.T.1    Rison, S.C.G.2    Stoker, N.G.3    Wernisch, L.4
  • 12
    • 13844264506 scopus 로고    scopus 로고
    • iPfam: visualization of protein-protein interactions in PDB at domain and amino acid resolutions
    • Finn R.D., Marshall M., and Bateman A. iPfam: visualization of protein-protein interactions in PDB at domain and amino acid resolutions. Bioinformatics 21 (2005) 410-412
    • (2005) Bioinformatics , vol.21 , pp. 410-412
    • Finn, R.D.1    Marshall, M.2    Bateman, A.3
  • 13
    • 0031811851 scopus 로고    scopus 로고
    • RegulonDB: a database on transcriptional regulation in Escherichia coli
    • Huerta A.M., Salgado H., Thieffry D., and Collado-Vides J. RegulonDB: a database on transcriptional regulation in Escherichia coli. Nucl. Acids Res. 26 (1998) 55-59
    • (1998) Nucl. Acids Res. , vol.26 , pp. 55-59
    • Huerta, A.M.1    Salgado, H.2    Thieffry, D.3    Collado-Vides, J.4
  • 14
    • 17444407071 scopus 로고    scopus 로고
    • A fuzzy guided genetic algorithm for operon prediction
    • Jacob E., Sasikumar R., and Nair K.N.R. A fuzzy guided genetic algorithm for operon prediction. Bioinformatics 21 (2005) 1403-1407
    • (2005) Bioinformatics , vol.21 , pp. 1403-1407
    • Jacob, E.1    Sasikumar, R.2    Nair, K.N.R.3
  • 15
    • 0141519279 scopus 로고    scopus 로고
    • OrthoMCL: identification of ortholog groups for eukaryotic genomes
    • Li L., Stoeckert Jr. C.J., and Roos D.S. OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res. 13 (2003) 2178-2189
    • (2003) Genome Res. , vol.13 , pp. 2178-2189
    • Li, L.1    Stoeckert Jr., C.J.2    Roos, D.S.3
  • 16
    • 33646874670 scopus 로고    scopus 로고
    • Lewin, B., 2003. Genes VIII, Prentice Hall, Upper Saddle River, NJ.
  • 17
    • 0001291140 scopus 로고    scopus 로고
    • A powerful non-homology method for the prediction of operons in prokaryotes
    • Moreno-Hagelsieb G., and Collado-Vides J. A powerful non-homology method for the prediction of operons in prokaryotes. Bioinformatics 18 (2002) 329S-336S
    • (2002) Bioinformatics , vol.18
    • Moreno-Hagelsieb, G.1    Collado-Vides, J.2
  • 18
    • 0033551248 scopus 로고    scopus 로고
    • Assigning protein functions by comparative genome analysis: protein phylogenetic profiles
    • Pellegrini M., Marcotte E.M., Thompson M.J., Eisenberg D., and Yeates T.O. Assigning protein functions by comparative genome analysis: protein phylogenetic profiles. PNAS 96 (1999) 4285-4288
    • (1999) PNAS , vol.96 , pp. 4285-4288
    • Pellegrini, M.1    Marcotte, E.M.2    Thompson, M.J.3    Eisenberg, D.4    Yeates, T.O.5
  • 19
    • 33646855675 scopus 로고    scopus 로고
    • Platt, J., 1998. Sequential minimal optimization: a fast algorithm for training support vector machines. https://research.microsoft.com/users/jplatt/smoTR.pdf.
  • 20
    • 13944268797 scopus 로고    scopus 로고
    • A novel method for accurate operon predictions in all sequenced prokaryotes
    • Price M.N., Huang K.H., Alm E.J., and Arkin A.P. A novel method for accurate operon predictions in all sequenced prokaryotes. Nucl. Acids Res. 33 (2005) 880-892
    • (2005) Nucl. Acids Res. , vol.33 , pp. 880-892
    • Price, M.N.1    Huang, K.H.2    Alm, E.J.3    Arkin, A.P.4
  • 21
    • 0034612277 scopus 로고    scopus 로고
    • Operons in Escherichia coli: genomic analyses and predictions
    • Salgado H., Moreno-Hagelsieb G., Smith T.F., and Collado-Vides J. Operons in Escherichia coli: genomic analyses and predictions. PNAS 97 (2000) 6652-6657
    • (2000) PNAS , vol.97 , pp. 6652-6657
    • Salgado, H.1    Moreno-Hagelsieb, G.2    Smith, T.F.3    Collado-Vides, J.4
  • 22
    • 33646865576 scopus 로고    scopus 로고
    • Simon, H., 1999. Neural Networks: A Comprehensive Foundation, Prentice-Hall, New Jersey.
  • 23
    • 3142674779 scopus 로고    scopus 로고
    • Genome-wide operon prediction in Staphylococcus aureus
    • Wang L., Trawick J.D., Yamamoto R., and Zamudio C. Genome-wide operon prediction in Staphylococcus aureus. Nucl. Acids Res. 32 (2004) 3689-3702
    • (2004) Nucl. Acids Res. , vol.32 , pp. 3689-3702
    • Wang, L.1    Trawick, J.D.2    Yamamoto, R.3    Zamudio, C.4
  • 24
    • 0033506881 scopus 로고    scopus 로고
    • Modeling and predicting transcriptional units of Escherichia coli genes using hidden Markov models
    • Yada T., Nakao M., Totoki Y., and Nakai K. Modeling and predicting transcriptional units of Escherichia coli genes using hidden Markov models. Bioinformatics 15 (1999) 987-993
    • (1999) Bioinformatics , vol.15 , pp. 987-993
    • Yada, T.1    Nakao, M.2    Totoki, Y.3    Nakai, K.4
  • 25
    • 0037057376 scopus 로고    scopus 로고
    • Genomic functional annotation using co-evolution profiles of gene clusters
    • (research0060.1-research0060.9)
    • Zheng Y., Roberts R., and Kasif S. Genomic functional annotation using co-evolution profiles of gene clusters. Genome Biol. 3 (2002) (research0060.1-research0060.9)
    • (2002) Genome Biol. , vol.3
    • Zheng, Y.1    Roberts, R.2    Kasif, S.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.