메뉴 건너뛰기




Volumn 21, Issue 9, 2005, Pages 2008-2016

Investigating metabolite essentiality through genome-scale analysis of Escherichia coli production capabilities

Author keywords

[No Author keywords available]

Indexed keywords

5 METHYLTETRAHYDROFOLIC ACID; ACETYL COENZYME A; ADENOSINE DIPHOSPHATE; ADENOSINE TRIPHOSPHATE; CARDIOLIPIN; COENZYME A; CYTIDINE DIPHOSPHATE DIGLYCERIDE; CYTIDINE TRIPHOSPHATE; DEOXYADENOSINE TRIPHOSPHATE; DEOXYCYTIDINE TRIPHOSPHATE; DEOXYGUANOSINE TRIPHOSPHATE; DEXTRO GLUTAMIC ACID; DIACYLGLYCEROL; FARNESYL DIPHOSPHATE; GLUTAMIC ACID TRANSFER RNA; GLYCOGEN; GUANOSINE DIPHOSPHATE; ISOPENTENYL DIPHOSPHATE; LIPID A; LIPID X; NICOTINAMIDE ADENINE DINUCLEOTIDE; NICOTINAMIDE ADENINE DINUCLEOTIDE PHOSPHATE; PEPTIDOGLYCAN; PHOSPHATIDIC ACID; PHOSPHATIDYLETHANOLAMINE; PROTEIN SUBUNIT; QUINONE DERIVATIVE; S ADENOSYLMETHIONINE; THYMIDINE DIPHOSPHATE; THYMIDINE TRIPHOSPHATE;

EID: 18744380689     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/bti245     Document Type: Article
Times cited : (34)

References (29)
  • 2
    • 1242319556 scopus 로고    scopus 로고
    • The metabolic world of Escherichia coli is not small
    • Arita,M. (2004) The metabolic world of Escherichia coli is not small. Proc. Natl Acad. Sci. USA, 101, 1543-1547.
    • (2004) Proc. Natl. Acad. Sci. USA , vol.101 , pp. 1543-1547
    • Arita, M.1
  • 3
    • 0035161543 scopus 로고    scopus 로고
    • Genomes OnLine Database (GOLD): A monitor of genome projects world-wide
    • Bernal,A., Ear,U. and Kyrpides,N. (2001) Genomes OnLine Database (GOLD): a monitor of genome projects world-wide. Nucleic Acids Res., 29, 126-127.
    • (2001) Nucleic Acids Res. , vol.29 , pp. 126-127
    • Bernal, A.1    Ear, U.2    Kyrpides, N.3
  • 4
    • 0037379691 scopus 로고    scopus 로고
    • New technologies to assess genotype-phenotype relationships
    • Bochner,B.R. (2003) New technologies to assess genotype-phenotype relationships. Nat. Rev. Genet., 4, 309-314.
    • (2003) Nat. Rev. Genet. , vol.4 , pp. 309-314
    • Bochner, B.R.1
  • 5
    • 0023714694 scopus 로고
    • Stoichiometric network analysis
    • Clarke,B.L. (1988) Stoichiometric network analysis. Cell Biophys., 12, 237-253.
    • (1988) Cell Biophys. , vol.12 , pp. 237-253
    • Clarke, B.L.1
  • 7
    • 2342648924 scopus 로고    scopus 로고
    • Integrating high-throughput and computational data elucidates bacterial networks
    • Covert,M.W., Knight,E.M., Reed,J.L., Herrgard,M.J. and Palsson,B.O. (2004) Integrating high-throughput and computational data elucidates bacterial networks. Nature, 429, 92-96.
    • (2004) Nature , vol.429 , pp. 92-96
    • Covert, M.W.1    Knight, E.M.2    Reed, J.L.3    Herrgard, M.J.4    Palsson, B.O.5
  • 8
    • 0034625143 scopus 로고    scopus 로고
    • The Escherichia coli MG1655 in silico metabolic genotype: Its definition, characteristics, and capabilities
    • Edwards,J.S. and Palsson,B.O. (2000) The Escherichia coli MG1655 in silico metabolic genotype: its definition, characteristics, and capabilities. Proc. Natl Acad. Sci. USA, 97, 5528-5533.
    • (2000) Proc. Natl. Acad. Sci. USA , vol.97 , pp. 5528-5533
    • Edwards, J.S.1    Palsson, B.O.2
  • 9
    • 0035125986 scopus 로고    scopus 로고
    • Silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data
    • Edwards,J.S., Ibarra,R.U. and Palsson,B.O. (2001) In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data. Nat. Biotechnol., 19, 125-130.
    • (2001) Nat. Biotechnol. , vol.19 , pp. 125-130
    • Edwards, J.S.1    Ibarra, R.U.2    Palsson, B.O.3
  • 10
    • 0344824417 scopus 로고    scopus 로고
    • Saccharomyces cerevisiae phenotypes can be predicted by using constraint-based analysis of a genome-scale reconstructed metabolic network
    • Famili,I., Forster,J., Nielsen,J. and Palsson,B.O. (2003) Saccharomyces cerevisiae phenotypes can be predicted by using constraint-based analysis of a genome-scale reconstructed metabolic network. Proc. Natl Acad. Sci. USA, 100, 13134-13139.
    • (2003) Proc. Natl. Acad. Sci. USA , vol.100 , pp. 13134-13139
    • Famili, I.1    Forster, J.2    Nielsen, J.3    Palsson, B.O.4
  • 11
    • 6944224154 scopus 로고    scopus 로고
    • Metabolic gene-deletion strains of Escherichia coli evolve to computationally predicted growth phenotypes
    • Fong,S.S. and Palsson,B.O. (2004) Metabolic gene-deletion strains of Escherichia coli evolve to computationally predicted growth phenotypes. Nat. Genet., 36, 1056-1058.
    • (2004) Nat. Genet. , vol.36 , pp. 1056-1058
    • Fong, S.S.1    Palsson, B.O.2
  • 14
    • 0037079023 scopus 로고    scopus 로고
    • Escherichia coli K-12 undergoes adaptive evolution to achieve in silico predicted optimal growth
    • Ibarra,R.U., Edwards,J.S. and Palsson,B.O. (2002) Escherichia coli K-12 undergoes adaptive evolution to achieve in silico predicted optimal growth. Nature, 420, 186-189.
    • (2002) Nature , vol.420 , pp. 186-189
    • Ibarra, R.U.1    Edwards, J.S.2    Palsson, B.O.3
  • 15
    • 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
  • 19
    • 0344328817 scopus 로고    scopus 로고
    • An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR)
    • Reed,J.L., Vo,T.D., Schilling,C.H. and Palsson,B.O. (2003) An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR). Genome Biol., 4, R54.
    • (2003) Genome Biol. , vol.4
    • Reed, J.L.1    Vo, T.D.2    Schilling, C.H.3    Palsson, B.O.4
  • 20
    • 0033136116 scopus 로고    scopus 로고
    • Toward metabolic phenomics: Analysis of genomic data using flux balances
    • Schilling,C.H., Edwards,J.S. and Palsson,B.O. (1999a) Toward metabolic phenomics: analysis of genomic data using flux balances. Biotechnol. Prog., 15, 288-295.
    • (1999) Biotechnol. Prog. , vol.15 , pp. 288-295
    • Schilling, C.H.1    Edwards, J.S.2    Palsson, B.O.3
  • 21
    • 0033136109 scopus 로고    scopus 로고
    • Metabolic pathway analysis: Basic concepts and scientific applications in the post-genomic era
    • Schilling,C.H., Schuster,S., Palsson,B.O. and Heinrich,R. (1999b) Metabolic pathway analysis: basic concepts and scientific applications in the post-genomic era. Biotechnol. Prog., 15, 296-303.
    • (1999) Biotechnol. Prog. , vol.15 , pp. 296-303
    • Schilling, C.H.1    Schuster, S.2    Palsson, B.O.3    Heinrich, R.4
  • 22
    • 0034447725 scopus 로고    scopus 로고
    • Combining pathway analysis with flux balance analysis for the comprehensive study of metabolic systems
    • Schilling,C.H., Edwards,J.S., Letscher,D. and Palsson,B.O. (2000a) Combining pathway analysis with flux balance analysis for the comprehensive study of metabolic systems. Biotechnol. Bioeng., 71, 286-306.
    • (2000) Biotechnol. Bioeng. , vol.71 , pp. 286-306
    • Schilling, C.H.1    Edwards, J.S.2    Letscher, D.3    Palsson, B.O.4
  • 23
    • 0034615791 scopus 로고    scopus 로고
    • Theory for the systemic definition of metabolic pathways and their use in interpreting metabolic function from a pathway-oriented perspective
    • Schilling,C.H., Letscher,D. and Palsson,B.O. (2000b) Theory for the systemic definition of metabolic pathways and their use in interpreting metabolic function from a pathway-oriented perspective. J. Theor. Biol., 203, 229-248.
    • (2000) J. Theor. Biol. , vol.203 , pp. 229-248
    • Schilling, C.H.1    Letscher, D.2    Palsson, B.O.3
  • 24
    • 0034615788 scopus 로고    scopus 로고
    • Assessment of the metabolic capabilities of Haemophilus influenzae Rd through a genome-scale pathway analysis
    • Schilling,C.H. and Palsson,B.O. (2000c) Assessment of the metabolic capabilities of Haemophilus influenzae Rd through a genome-scale pathway analysis. J. Theor. Biol., 203, 249-283.
    • (2000) J. Theor. Biol. , vol.203 , pp. 249-283
    • Schilling, C.H.1    Palsson, B.O.2
  • 26
    • 0034064689 scopus 로고    scopus 로고
    • A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks
    • Schuster,S., Fell,D.A. and Dandekar,T. (2000) A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks. Nat. Biotechnol., 18, 326-332.
    • (2000) Nat. Biotechnol. , vol.18 , pp. 326-332
    • Schuster, S.1    Fell, D.A.2    Dandekar, T.3
  • 27
    • 0036188159 scopus 로고    scopus 로고
    • Exploring the pathway structure of metabolism: Decomposition into subnetworks and application to Mycoplasma pneumoniae
    • Schuster,S., Pfeiffer,T., Moldenhauer,F., Koch,I. and Dandekar,T. (2002) Exploring the pathway structure of metabolism: decomposition into subnetworks and application to Mycoplasma pneumoniae. Bioinformatics, 18, 351-361.
    • (2002) Bioinformatics , vol.18 , pp. 351-361
    • Schuster, S.1    Pfeiffer, T.2    Moldenhauer, F.3    Koch, I.4    Dandekar, T.5
  • 28
    • 0037069467 scopus 로고    scopus 로고
    • Analysis of optimality in natural and perturbed metabolic networks
    • Segre,D., Vitkup,D. and Church,G.M. (2002) Analysis of optimality in natural and perturbed metabolic networks. Proc. Natl Acad. Sci. USA, 99, 15112-15117.
    • (2002) Proc. Natl Acad. Sci. USA , vol.99 , pp. 15112-15117
    • Segre, D.1    Vitkup, D.2    Church, G.M.3
  • 29
    • 0028108519 scopus 로고
    • Metabolic flux balancing - Basic concepts, scientific and practical use
    • Varma,A. and Palsson,B.O. (1994) Metabolic flux balancing - basic concepts, scientific and practical use. Biotechnology, 12, 994-998.
    • (1994) Biotechnology , vol.12 , pp. 994-998
    • Varma, A.1    Palsson, B.O.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.