-
1
-
-
0037211077
-
Sequenced-based analysis of metabolic demands for protein synthesis in prokaryotes
-
Allen, T. E., and B. O. Palsson. 2003. Sequenced-based analysis of metabolic demands for protein synthesis in prokaryotes. J. Theor. Biol. 220:1-18.
-
(2003)
J. Theor. Biol.
, vol.220
, pp. 1-18
-
-
Allen, T.E.1
Palsson, B.O.2
-
2
-
-
0031879114
-
Stochastic kinetic analysis of developmental pathway bifurcation in phage lambda-infected Escherichia coli cells
-
Arkin, A., J. Ross, and H. H. McAdams. 1998. Stochastic kinetic analysis of developmental pathway bifurcation in phage lambda-infected Escherichia coli cells. Genetics 149:1633-1648.
-
(1998)
Genetics
, vol.149
, pp. 1633-1648
-
-
Arkin, A.1
Ross, J.2
McAdams, H.H.3
-
3
-
-
0036286631
-
Energy balance for analysis of complex metabolic networks
-
Beard, D. A., S. D. Liang, and H. Qian. 2002. Energy balance for analysis of complex metabolic networks. Biophys. J. 83:79-86.
-
(2002)
Biophys. J.
, vol.83
, pp. 79-86
-
-
Beard, D.A.1
Liang, S.D.2
Qian, H.3
-
4
-
-
15444350252
-
The complete genome sequence of Escherichia coli K-12
-
Blattner, F. R., G. Plunkett 3rd, C. A. Bloch, N. T. Perna, V. Burland, M. Riley, J. Collado-Vides, J. D. Glasner, C. K. Rode, G. F. Mayhew, J. Gregor, N. W. Davis, H. A. Kirkpatrick, M. A. Goeden, D. J. Rose, B. Mau, and Y. Shao. 1997. The complete genome sequence of Escherichia coli K-12. Science 277:1453-1474.
-
(1997)
Science
, vol.277
, pp. 1453-1474
-
-
Blattner, F.R.1
Plunkett G. III2
Bloch, C.A.3
Perna, N.T.4
Burland, V.5
Riley, M.6
Collado-Vides, J.7
Glasner, J.D.8
Rode, C.K.9
Mayhew, G.F.10
Gregor, J.11
Davis, N.W.12
Kirkpatrick, H.A.13
Goeden, M.A.14
Rose, D.J.15
Mau, B.16
Shao, Y.17
-
5
-
-
0030804853
-
Flux analysis of underdetermined metabolic networks: The quest for the missing constraints
-
Bonarius, H. P. J., G. Schmid, and J. Tramper. 1997. Flux analysis of underdetermined metabolic networks: the quest for the missing constraints. Trends Biotechnol. 15:308-314.
-
(1997)
Trends Biotechnol.
, vol.15
, pp. 308-314
-
-
Bonarius, H.P.J.1
Schmid, G.2
Tramper, J.3
-
6
-
-
0035812464
-
Probing the performance limits of the Escherichia coli metabolic network subject to gene additions or deletions
-
Burgard, A. P., and C. D. Maranas. 2001. Probing the performance limits of the Escherichia coli metabolic network subject to gene additions or deletions. Biotechnol. Bioeng. 74:364-375.
-
(2001)
Biotechnol. Bioeng.
, vol.74
, pp. 364-375
-
-
Burgard, A.P.1
Maranas, C.D.2
-
7
-
-
0242722400
-
An optimization based framework for inferring and testing hypothesized metabolic objective functions
-
in press
-
Burgard, A. P., and C. D. Maranas. 2002. An optimization based framework for inferring and testing hypothesized metabolic objective functions. Biotechnol. Bioeng, in press.
-
(2002)
Biotechnol. Bioeng.
-
-
Burgard, A.P.1
Maranas, C.D.2
-
8
-
-
0034798879
-
Minimal reaction sets for Escherichia coli metabolism under different growth requirements and uptake environments
-
Burgard, A. P., S. Vaidyaraman, and C. D. Maranas. 2001. Minimal reaction sets for Escherichia coli metabolism under different growth requirements and uptake environments. Biotechnol. Prog. 17:791-797.
-
(2001)
Biotechnol. Prog.
, vol.17
, pp. 791-797
-
-
Burgard, A.P.1
Vaidyaraman, S.2
Maranas, C.D.3
-
9
-
-
0037142769
-
Metabolic pathway analysis of a recombinant yeast for rational strain development
-
Carlson, R., D. Fell, and F. Srienc. 2002. Metabolic pathway analysis of a recombinant yeast for rational strain development. Biotechnol. Bioeng. 79: 121-134.
-
(2002)
Biotechnol. Bioeng.
, vol.79
, pp. 121-134
-
-
Carlson, R.1
Fell, D.2
Srienc, F.3
-
10
-
-
0037008673
-
Transcriptional regulation in constraints-based metabolic models of Escherichia coli
-
Covert, M. W., and B. O. Palsson. 2002. Transcriptional regulation in constraints-based metabolic models of Escherichia coli. J. Biol. Chem. 277: 28058-28064.
-
(2002)
J. Biol. Chem.
, vol.277
, pp. 28058-28064
-
-
Covert, M.W.1
Palsson, B.O.2
-
11
-
-
0035281870
-
Metabolic modeling of microbial strains in silico
-
Covert, M. W., C. H. Schilling, I. Famili, J. S. Edwards, I. I. Goryanin, E. Selkov, and B. O. Palsson. 2001. Metabolic modeling of microbial strains in silico. Trends Biochem. Sci. 26:179-186.
-
(2001)
Trends Biochem. Sci.
, vol.26
, pp. 179-186
-
-
Covert, M.W.1
Schilling, C.H.2
Famili, I.3
Edwards, J.S.4
Goryanin, I.I.5
Selkov, E.6
Palsson, B.O.7
-
12
-
-
0035824029
-
Regulation of gene expression in flux balance models of metabolism
-
Covert, M. W., C. H. Schilling, and B. Palsson. 2001. Regulation of gene expression in flux balance models of metabolism. J. Theor. Biol. 213:73-88.
-
(2001)
J. Theor. Biol.
, vol.213
, pp. 73-88
-
-
Covert, M.W.1
Schilling, C.H.2
Palsson, B.3
-
13
-
-
33749148828
-
Computer model for glucose-limited growth of a single cell of Escherichia coli B/r-A
-
Domach, M. M., S. K. Leung, R. E. Cahn, G. G. Cocks, and M. L. Shuler. 2000. Computer model for glucose-limited growth of a single cell of Escherichia coli B/r-A. Biotechnol. Bioeng. 67:827-840.
-
(2000)
Biotechnol. Bioeng.
, vol.67
, pp. 827-840
-
-
Domach, M.M.1
Leung, S.K.2
Cahn, R.E.3
Cocks, G.G.4
Shuler, M.L.5
-
14
-
-
0036404867
-
The Department of Energy Microbial Cell Project: A 180° paradigm shift for biology
-
Drell, D. 2002. The Department of Energy Microbial Cell Project: a 180° paradigm shift for biology. OMICS J. Integr. Biol. 6:3-9.
-
(2002)
OMICS J. Integr. Biol.
, vol.6
, pp. 3-9
-
-
Drell, D.1
-
15
-
-
0036001069
-
Metabolic modelling of microbes: The flux-balance approach
-
Edwards, J. S., M. Covert, and B. Palsson. 2002. Metabolic modelling of microbes: the flux-balance approach. Environ. Microbiol. 4:133-140.
-
(2002)
Environ. Microbiol.
, vol.4
, pp. 133-140
-
-
Edwards, J.S.1
Covert, M.2
Palsson, B.3
-
16
-
-
0035125986
-
In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data
-
Edwards, J. S., R. U. Ibarra, and B. O. Palsson. 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
-
17
-
-
0034625143
-
The Escherichia coli MG1655 in silico metabolic genotype: Its definition, characteristics, and capabilities
-
Edwards, J. S., and B. O. Palsson. 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
-
18
-
-
0033580813
-
Systems properties of the Haemophilus influenzae Rd metabolic genotype
-
Edwards, J. S., and B. O. Palsson. 1999. Systems properties of the Haemophilus influenzae Rd metabolic genotype. J. Biol. Chem. 274:17410-17416.
-
(1999)
J. Biol. Chem.
, vol.274
, pp. 17410-17416
-
-
Edwards, J.S.1
Palsson, B.O.2
-
19
-
-
0037021804
-
Characterizing the metabolic phenotype: A phenotype phase plane analysis
-
Edwards, J. S., R. Ramakrishna, and B. O. Palsson. 2002. Characterizing the metabolic phenotype: a phenotype phase plane analysis. Biotechnol. Bioeng. 77:27-36.
-
(2002)
Biotechnol. Bioeng.
, vol.77
, pp. 27-36
-
-
Edwards, J.S.1
Ramakrishna, R.2
Palsson, B.O.3
-
20
-
-
0001827017
-
Metabolic flux balance analysis
-
S. Y. Lee and E. T. Papoutsakis (ed.). Marcel Dekker, New York, N.Y.
-
Edwards, J. S., R. Ramakrishna, C. H. Schilling, and B. O. Palsson. 1999. Metabolic flux balance analysis, p. 13-57. In S. Y. Lee and E. T. Papoutsakis (ed.), Metabolic engineering. Marcel Dekker, New York, N.Y.
-
(1999)
Metabolic Engineering
, pp. 13-57
-
-
Edwards, J.S.1
Ramakrishna, R.2
Schilling, C.H.3
Palsson, B.O.4
-
22
-
-
0033757963
-
Metabolite profiling for plant functional genomics
-
Fiehn, O., J. Kopka, P. Dormann, T. Altmann, R. N. Trethewey, and L. Willmitzer. 2000. Metabolite profiling for plant functional genomics. Nat. Biotechnol. 18:1157-1161.
-
(2000)
Nat. Biotechnol.
, vol.18
, pp. 1157-1161
-
-
Fiehn, O.1
Kopka, J.2
Dormann, P.3
Altmann, T.4
Trethewey, R.N.5
Willmitzer, L.6
-
23
-
-
0036526245
-
Analysis of carbon metabolism in Escherichia coli strains with an inactive phosphotransferase system by (13)C labeling and NMR spectroscopy
-
Flores, S., G. Gosset, N. Flores, A. A. de Graaf, and F. Bolivar. 2002. Analysis of carbon metabolism in Escherichia coli strains with an inactive phosphotransferase system by (13)C labeling and NMR spectroscopy. Metab. Eng. 4:124-137.
-
(2002)
Metab. Eng.
, vol.4
, pp. 124-137
-
-
Flores, S.1
Gosset, G.2
Flores, N.3
De Graaf, A.A.4
Bolivar, F.5
-
24
-
-
0037313750
-
Genomescale reconstruction of the Saccharomyces cerevisiae metabolic network
-
Forster, J., I. Famili, P. C. Fu, B. O. Palsson, and J. Nielsen. 2003. Genomescale reconstruction of the Saccharomyces cerevisiae metabolic network. Genome Res. 13:244-253.
-
(2003)
Genome Res.
, vol.13
, pp. 244-253
-
-
Forster, J.1
Famili, I.2
Fu, P.C.3
Palsson, B.O.4
Nielsen, J.5
-
25
-
-
0036366689
-
Combining location and expression data for principled discovery of genetic regulatory network models
-
Hartemink, A. J., D. K. Gifford, T. S. Jaakkola, and R. A. Young. 2002. Combining location and expression data for principled discovery of genetic regulatory network models. Pac. Symp. Biocomput., p. 437-449.
-
(2002)
Pac. Symp. Biocomput.
, pp. 437-449
-
-
Hartemink, A.J.1
Gifford, D.K.2
Jaakkola, T.S.3
Young, R.A.4
-
26
-
-
0035319006
-
Computational studies of gene regulatory networks: In numero molecular biology
-
Hasty, J., D. McMillen, F. Isaacs, and J. J. Collins. 2001. Computational studies of gene regulatory networks: in numero molecular biology. Nat. Rev. Genet. 2:268-279.
-
(2001)
Nat. Rev. Genet.
, vol.2
, pp. 268-279
-
-
Hasty, J.1
McMillen, D.2
Isaacs, F.3
Collins, J.J.4
-
27
-
-
0037079023
-
Escherichia coli K-12 undergoes adaptive evolution to achieve in silico predicted optimal growth
-
Ibarra, R. U., J. S. Edwards, and B. O. Palsson. 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
-
28
-
-
0036084127
-
The EcoCyc Database
-
Karp, P. D., M. Riley, M. Saier, I. T. Paulsen, J. Collado-Vides, S. M. Paley, A. Pellegrini-Toole, C. Bonavides, and S. Gama-Castro. 2002. The EcoCyc Database. Nucleic Acids Res. 30:56-58.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 56-58
-
-
Karp, P.D.1
Riley, M.2
Saier, M.3
Paulsen, I.T.4
Collado-Vides, J.5
Paley, S.M.6
Pellegrini-Toole, A.7
Bonavides, C.8
Gama-Castro, S.9
-
29
-
-
0036039060
-
Combinatorial complexity of pathway analysis in metabolic networks
-
Klamt, S., and J. Stelling. 2002. Combinatorial complexity of pathway analysis in metabolic networks. Mol. Biol. Rep. 29:233-236.
-
(2002)
Mol. Biol. Rep.
, vol.29
, pp. 233-236
-
-
Klamt, S.1
Stelling, J.2
-
30
-
-
84984932880
-
Array of hope
-
Lander, E. S. 1999. Array of hope. Nat. Genet. 21:3-4.
-
(1999)
Nat. Genet.
, vol.21
, pp. 3-4
-
-
Lander, E.S.1
-
31
-
-
0034661295
-
Recursive MILP model for finding all the alternate optima in LP models for metabolic networks
-
Lee, S., C. Phalakornkule, M. M. Domach, and I. E. Grossmann. 2000. Recursive MILP model for finding all the alternate optima in LP models for metabolic networks. Comp. Chem. Eng. 24:711-716.
-
(2000)
Comp. Chem. Eng.
, vol.24
, pp. 711-716
-
-
Lee, S.1
Phalakornkule, C.2
Domach, M.M.3
Grossmann, I.E.4
-
32
-
-
0030571222
-
Pathway analysis, engineering and physiological considerations for redirecting central metabolism
-
Liao, J. C., S. Y. Hou, and Y. P. Chao. 1996. Pathway analysis, engineering and physiological considerations for redirecting central metabolism. Biotechnol. Bioeng. 52:129-140.
-
(1996)
Biotechnol. Bioeng.
, vol.52
, pp. 129-140
-
-
Liao, J.C.1
Hou, S.Y.2
Chao, Y.P.3
-
33
-
-
0025405421
-
Simple constrained optimization view of acetate overflow in E. coli
-
Majewski, R. A., and M. M. Domach. 1990. Simple constrained optimization view of acetate overflow in E. coli. Biotechnol. Bioeng. 35:732-738.
-
(1990)
Biotechnol. Bioeng.
, vol.35
, pp. 732-738
-
-
Majewski, R.A.1
Domach, M.M.2
-
35
-
-
0003796783
-
-
American Society for Microbiology, Washington, D.C.
-
Neidhardt, F. C., J. L. Ingraham, K. B. Low, B. Magasanik, M. Schaechter, and H. E. Umbarger (ed.). 1987. Escherichia coli and Salmonella typhimurium: cellular and molecular biology. American Society for Microbiology, Washington, D.C.
-
(1987)
Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology
-
-
Neidhardt, F.C.1
Ingraham, J.L.2
Low, K.B.3
Magasanik, B.4
Schaechter, M.5
Umbarger, H.E.6
-
36
-
-
0003742927
-
-
Sinauer Associates, Inc., Sunderland, Mass.
-
Neidhardt, F. C., J. L. Ingraham, and M. Schaechter. 1990. Physiology of the bacterial cell. Sinauer Associates, Inc., Sunderland, Mass.
-
(1990)
Physiology of the Bacterial Cell
-
-
Neidhardt, F.C.1
Ingraham, J.L.2
Schaechter, M.3
-
37
-
-
0002437481
-
Chemical composition of Escherichia coli
-
F. C. Neidhardt, R. Curtiss III, J. L. Ingraham, E. C. C. Lin, K. B. Low, B. Magasanik, W. S. Reznikoff, M. Riley, M. Schaechter, and H. E. Umbarger (ed.). ASM Press, Washington, D.C.
-
Neidhardt, F. C., and H. E. Umbarger. 1996. Chemical composition of Escherichia coli, p. 13-16. In F. C. Neidhardt, R. Curtiss III, J. L. Ingraham, E. C. C. Lin, K. B. Low, B. Magasanik, W. S. Reznikoff, M. Riley, M. Schaechter, and H. E. Umbarger (ed.), Escherichia coli and Salmonella: cellular and molecular biology, 2nd ed., vol. 1. ASM Press, Washington, D.C.
-
(1996)
Escherichia coli and Salmonella: Cellular and Molecular Biology, 2nd Ed.
, vol.1
, pp. 13-16
-
-
Neidhardt, F.C.1
Umbarger, H.E.2
-
38
-
-
0033764285
-
The challenges of in silico biology
-
Palsson, B. O. 2000. The challenges of in silico biology. Nat. Biotechnot. 18:1147-1150.
-
(2000)
Nat. Biotechnot.
, vol.18
, pp. 1147-1150
-
-
Palsson, B.O.1
-
39
-
-
0035989610
-
In silico biology through "omics"
-
Palsson, B. O. 2002. In silico biology through "omics." Nat. Biotechnol. 20: 649-650.
-
(2002)
Nat. Biotechnol.
, vol.20
, pp. 649-650
-
-
Palsson, B.O.1
-
40
-
-
0036350955
-
The genome-scale metabolic extreme pathway structure in Haemophilus influenzae shows significant network redundancy
-
Papin, J. A., N. D. Price, J. S. Edwards, and B. O. Palsson. 2002. The genome-scale metabolic extreme pathway structure in Haemophilus influenzae shows significant network redundancy. J. Theor. Biol. 215:67-82.
-
(2002)
J. Theor. Biol.
, vol.215
, pp. 67-82
-
-
Papin, J.A.1
Price, N.D.2
Edwards, J.S.3
Palsson, B.O.4
-
41
-
-
0034786553
-
Microbial metabolism as an evolutionary response: The cybernetic approach to modeling
-
Patnaik, P. R. 2001. Microbial metabolism as an evolutionary response: the cybernetic approach to modeling. Crit. Rev. Biotechnol. 21:155-175.
-
(2001)
Crit. Rev. Biotechnol.
, vol.21
, pp. 155-175
-
-
Patnaik, P.R.1
-
42
-
-
0034805665
-
A MILP-based flux alternative generation and NMR experimental design strategy for metabolic engineering
-
Phalakornkule, C., S. Lee, T. Zhu, R. Koepsel, M. M. Ataai, I. E. Grossmann, and M. M. Domach. 2001. A MILP-based flux alternative generation and NMR experimental design strategy for metabolic engineering. Metab. Eng. 3:124-137.
-
(2001)
Metab. Eng.
, vol.3
, pp. 124-137
-
-
Phalakornkule, C.1
Lee, S.2
Zhu, T.3
Koepsel, R.4
Ataai, M.M.5
Grossmann, I.E.6
Domach, M.M.7
-
43
-
-
0032552815
-
Effect of Escherichia coli biomass composition on central metabolic fluxes predicted by a stoichiometric model
-
Pramanik, J., and J. D. Keasling. 1998. Effect of Escherichia coli biomass composition on central metabolic fluxes predicted by a stoichiometric model. Biotechnol. Bioeng. 60:230-238.
-
(1998)
Biotechnol. Bioeng.
, vol.60
, pp. 230-238
-
-
Pramanik, J.1
Keasling, J.D.2
-
44
-
-
0343035686
-
Stoichiometric model of Escherichia coli metabolism: Incorporation of growth-rate dependent biomass composition and mechanistic energy requirements
-
Pramanik, J., and J. D. Keasling. 1997. Stoichiometric model of Escherichia coli metabolism: incorporation of growth-rate dependent biomass composition and mechanistic energy requirements. Biotechnol. Bioeng. 56:398-421.
-
(1997)
Biotechnol. Bioeng.
, vol.56
, pp. 398-421
-
-
Pramanik, J.1
Keasling, J.D.2
-
45
-
-
0036840340
-
Extreme pathways and Kirchhoff's second law
-
Price, N. D., I. Famili, D. A. Beard, and B. O. Palsson. 2002. Extreme pathways and Kirchhoff's second law. Biophys. J. 83:2879-2882.
-
(2002)
Biophys. J.
, vol.83
, pp. 2879-2882
-
-
Price, N.D.1
Famili, I.2
Beard, D.A.3
Palsson, B.O.4
-
46
-
-
0035160371
-
A functional genomics strategy that uses metabolome data to reveal the phenotype of silent mutations
-
Raamsdonk, L. M., B. Teusink, D. Broadhurst, N. Zhang, A. Hayes, M. C. Walsh, J. A. Berden, K. M. Brindle, D. B. Kell, J. J. Rowland, H. V. Westerhoff, K. van Dam, and S. G. Oliver. 2001. A functional genomics strategy that uses metabolome data to reveal the phenotype of silent mutations. Nat. Biotechnol. 19:45-50.
-
(2001)
Nat. Biotechnol.
, vol.19
, pp. 45-50
-
-
Raamsdonk, L.M.1
Teusink, B.2
Broadhurst, D.3
Zhang, N.4
Hayes, A.5
Walsh, M.C.6
Berden, J.A.7
Brindle, K.M.8
Kell, D.B.9
Rowland, J.J.10
Westerhoff, H.V.11
Van Dam, K.12
Oliver, S.G.13
-
48
-
-
0035162782
-
RegulonDB (version 3.2): Transcriptional regulation and operon organization in Escherichia coli K-12
-
Salgado, H., A. Santos-Zavaleta, S. Gama-Castro, D. Millán-Zárate, E. Díaz-Peredo, F. Sánchez-Solano, E. Pérez-Rueda, C. Bonavides-Martínez, and J. Collado-Vides. 2001. RegulonDB (version 3.2): transcriptional regulation and operon organization in Escherichia coli K-12. Nucleic Acids Res. 29:72-74.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 72-74
-
-
Salgado, H.1
Santos-Zavaleta, A.2
Gama-Castro, S.3
Millán-Zárate, D.4
Díaz-Peredo, E.5
Sánchez-Solano, F.6
Pérez-Rueda, E.7
Bonavides-Martínez, C.8
Collado-Vides, J.9
-
49
-
-
0036330798
-
Genome-scale metabolic model of Helicobacter pylori 26695
-
Schilling, C. H., M. W. Covert, I. Famili, G. M. Church, J. S. Edwards, and B. O. Palsson. 2002. Genome-scale metabolic model of Helicobacter pylori 26695. J. Bacteriol. 184:4582-4593.
-
(2002)
J. Bacteriol.
, vol.184
, pp. 4582-4593
-
-
Schilling, C.H.1
Covert, M.W.2
Famili, I.3
Church, G.M.4
Edwards, J.S.5
Palsson, B.O.6
-
50
-
-
0034447725
-
Combining pathway analysis with flux balance analysis for the comprehensive study of metabolic systems
-
Schilling, C. H., J. S. Edwards, D. Letscher, and B. O. Palsson. 2000. 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
-
51
-
-
0034615791
-
Theory for the systemic definition of metabolic pathways and their use in interpreting metabolic function from a pathway-oriented perspective
-
Schilling, C. H., D. Letscher, and B. O. Palsson. 2000. 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
-
52
-
-
0034615788
-
Assessment of the metabolic capabilities of Haemophilus influenzae Rd through a genome-scale pathway analysis
-
Schilling, C. H., and B. O. Palsson. 2000. 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
-
53
-
-
0033080396
-
Detection of elementary flux modes in biochemical networks: A promising tool for pathway analysis and metabolic engineering
-
Schuster, S., T. Dandekar, and D. A. Fell. 1999. Detection of elementary flux modes in biochemical networks: a promising tool for pathway analysis and metabolic engineering. Trends Biotechnol. 17:53-60.
-
(1999)
Trends Biotechnol.
, vol.17
, pp. 53-60
-
-
Schuster, S.1
Dandekar, T.2
Fell, D.A.3
-
54
-
-
0000029295
-
On elementary flux modes in biochemical reaction systems at steady state
-
Schuster, S., and C. Hilgetag. 1994. On elementary flux modes in biochemical reaction systems at steady state. J. Biol. Syst. 2:165-182.
-
(1994)
J. Biol. Syst.
, vol.2
, pp. 165-182
-
-
Schuster, S.1
Hilgetag, C.2
-
55
-
-
0037069467
-
Analysis of optimality in natural and perturbed metabolic networks
-
Segre, D., D. Vitkup, and G. M. Church. 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
-
56
-
-
0035224943
-
A functional update of the Escherichia coli K-12 genome
-
Online
-
Serres, M. H., S. Gopal, L. A. Nahum, P. Liang, T. Gaasterland, and M. Riley. 2001. A functional update of the Escherichia coli K-12 genome. Genome Biol. 2:35.1-35.7. [Online.]
-
(2001)
Genome Biol.
, vol.2
, pp. 351-357
-
-
Serres, M.H.1
Gopal, S.2
Nahum, L.A.3
Liang, P.4
Gaasterland, T.5
Riley, M.6
-
57
-
-
0037079050
-
Metabolic network structure determines key aspects of functionality and regulation
-
Stelling, J., S. Klamt, K. Bettenbrock, S. Schuster, and E. D. Gilles. 2002. Metabolic network structure determines key aspects of functionality and regulation. Nature 420:190-193.
-
(2002)
Nature
, vol.420
, pp. 190-193
-
-
Stelling, J.1
Klamt, S.2
Bettenbrock, K.3
Schuster, S.4
Gilles, E.D.5
-
58
-
-
0032491829
-
A dynamic model of the Escherichia coli phosphate-starvation response
-
Van Dien, S. J., and J. D. Keasling. 1998. A dynamic model of the Escherichia coli phosphate-starvation response. J. Theor. Biol. 190:37-49.
-
(1998)
J. Theor. Biol.
, vol.190
, pp. 37-49
-
-
Van Dien, S.J.1
Keasling, J.D.2
-
59
-
-
0037023907
-
Stoichiometric model for evaluating the metabolic capabilities of the facultative methylotroph Methylobacterium extorquens AM1, with application to reconstruction of C(3) and C(4) metabolism
-
Van Dien, S. J., and M. E. Lidstrom. 2002. Stoichiometric model for evaluating the metabolic capabilities of the facultative methylotroph Methylobacterium extorquens AM1, with application to reconstruction of C(3) and C(4) metabolism. Biotechnol. Bioeng. 78:296-312.
-
(2002)
Biotechnol. Bioeng.
, vol.78
, pp. 296-312
-
-
Van Dien, S.J.1
Lidstrom, M.E.2
-
60
-
-
0027909387
-
Biochemical production capabilities of Escherichia coli
-
Varma, A., B. W. Boesch, and B. O. Palsson. 1993. Biochemical production capabilities of Escherichia coli. Biotechnol. Bioeng. 42:59-73.
-
(1993)
Biotechnol. Bioeng.
, vol.42
, pp. 59-73
-
-
Varma, A.1
Boesch, B.W.2
Palsson, B.O.3
-
61
-
-
0027716622
-
Metabolic capabilities of Escherichia coli. I. Synthesis of biosynthetic precursors and cofactors
-
Varma, A., and B. O. Palsson. 1993. Metabolic capabilities of Escherichia coli. I. Synthesis of biosynthetic precursors and cofactors. J. Theor. Biol. 165: 477-502.
-
(1993)
J. Theor. Biol.
, vol.165
, pp. 477-502
-
-
Varma, A.1
Palsson, B.O.2
-
62
-
-
0027723421
-
Metabolic capabilities of Escherichia coli. II. Optimal growth patterns
-
Varma, A., and B. O. Palsson. 1993. Metabolic capabilities of Escherichia coli. II. Optimal growth patterns. J. Theor. Biol. 165:503-522.
-
(1993)
J. Theor. Biol.
, vol.165
, pp. 503-522
-
-
Varma, A.1
Palsson, B.O.2
-
63
-
-
0028108519
-
Metabolic flux balancing: Basic concepts, scientific and practical use
-
Varma, A., and B. O. Palsson. 1994. Metabolic flux balancing: basic concepts, scientific and practical use. Bio/Technology 12:994-998.
-
(1994)
Bio/Technology
, vol.12
, pp. 994-998
-
-
Varma, A.1
Palsson, B.O.2
-
64
-
-
0028146781
-
Stoichiometric flux balance models quantitatively predict growth and metabolic by-product secretion in wildtype Escherichia coli W3110
-
Varma, A., and B. O. Palsson. 1994. Stoichiometric flux balance models quantitatively predict growth and metabolic by-product secretion in wildtype Escherichia coli W3110. Appl. Environ. Microbiol. 60:3724-3731.
-
(1994)
Appl. Environ. Microbiol.
, vol.60
, pp. 3724-3731
-
-
Varma, A.1
Palsson, B.O.2
-
65
-
-
0021801376
-
Branch point control by the phosphorylation state of isocitrate dehydrogenase. A quantitative examination of fluxes during a regulatory transition
-
Walsh, K. J., and D. E. Koshland. 1985. Branch point control by the phosphorylation state of isocitrate dehydrogenase. A quantitative examination of fluxes during a regulatory transition. J. Biol. Chem. 260:8430-8437.
-
(1985)
J. Biol. Chem.
, vol.260
, pp. 8430-8437
-
-
Walsh, K.J.1
Koshland, D.E.2
-
66
-
-
0031105797
-
Mathematical model of the lac operon: Inducer exclusion, catabolite repression, and diauxic growth on glucose and lactose
-
Wong, P., S. Gladney, and J. D. Keasling. 1997. Mathematical model of the lac operon: inducer exclusion, catabolite repression, and diauxic growth on glucose and lactose. Biotechnol. Prog. 13:132-143.
-
(1997)
Biotechnol. Prog.
, vol.13
, pp. 132-143
-
-
Wong, P.1
Gladney, S.2
Keasling, J.D.3
|