-
1
-
-
44949225040
-
Context-specific metabolic networks are consistent with experiments
-
Becker, S.A. and Palsson, B.O. (2008) Context-specific metabolic networks are consistent with experiments. PLoS Comput. Biol., 4, e1000082.
-
(2008)
PLoS Comput. Biol.
, vol.4
, pp. e1000082
-
-
Becker, S.A.1
Palsson, B.O.2
-
2
-
-
84866487453
-
Integration of expression data in genome-scale metabolic network reconstructions
-
Blazier, A.S. and Papin J.A. (2012) Integration of expression data in genome-scale metabolic network reconstructions. Front. Physiol., 3, 299.
-
(2012)
Front. Physiol.
, vol.3
, pp. 299
-
-
Blazier, A.S.1
Papin, J.A.2
-
3
-
-
78049255973
-
Probabilistic integrative modeling of genome-scale metabolic and regulatory networks in Escherichia coli and mycobacterium tuberculosis
-
Chandrasekaran, S. and Price, N.D. (2010) Probabilistic integrative modeling of genome-scale metabolic and regulatory networks in Escherichia coli and Mycobacterium tuberculosis. Proc. Natl. Acad. Sci. U. S. A., 107, 17845-17850.
-
(2010)
Proc. Natl. Acad. Sci. U. S. A.
, vol.107
, pp. 17845-17850
-
-
Chandrasekaran, S.1
Price, N.D.2
-
4
-
-
78049445175
-
Drug off-target effects predicted using structural analysis in the context of a metabolic network model
-
Chang, R.L. et al. (2010) Drug off-target effects predicted using structural analysis in the context of a metabolic network model. PLoS Comput. Biol., 6, e1000938.
-
(2010)
PLoS Comput. Biol.
, vol.6
, pp. e1000938
-
-
Chang, R.L.1
-
5
-
-
70049110173
-
Interpreting expression data with metabolic flux models: Predicting mycobacterium tuberculosis mycolic acid production
-
Colijn, C. et al. (2009) Interpreting expression data with metabolic flux models: predicting Mycobacterium tuberculosis mycolic acid production. PLoS Comput. Biol., 5, e1000489.
-
(2009)
PLoS Comput. Biol.
, vol.5
, pp. e1000489
-
-
Colijn, C.1
-
6
-
-
0035125986
-
In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data
-
Edwards J.S. et al. (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
-
7
-
-
6944224154
-
Metabolic gene-deletion strains of Escherichia coli evolve to computationally predicted growth phenotypes
-
Fong, S.S. and Palsson, B. (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.2
-
8
-
-
0037079023
-
Escherichia coli K-12 undergoes adaptive evolution to achieve in silico predicted optimal growth
-
Ibarra, R.U. et al. (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
-
9
-
-
34247612307
-
Multiple high-throughput analyses monitor the response of E
-
Ishii, N. et al. (2007) Multiple high-throughput analyses monitor the response of E. coli to perturbations. Science, 316, 593-597.
-
(2007)
Coli to Perturbations. Science
, vol.316
, pp. 593-597
-
-
Ishii, N.1
-
10
-
-
79951536020
-
Functional integration of a metabolic network model and expression data without arbitrary thresholding
-
Jensen, P.A. and Papin, J.A. (2011) Functional integration of a metabolic network model and expression data without arbitrary thresholding. Bioinformatics, 27, 541-547.
-
(2011)
Bioinformatics
, vol.27
, pp. 541-547
-
-
Jensen, P.A.1
Papin, J.A.2
-
11
-
-
78751556862
-
Integrative genome-scale metabolic analysis of vibrio vulnificus for drug targeting and discovery
-
Kim, H.U. et al. (2011) Integrative genome-scale metabolic analysis of Vibrio vulnificus for drug targeting and discovery. Mol. Syst. Biol., 7, 460.
-
(2011)
Mol. Syst. Biol.
, vol.7
, pp. 460
-
-
Kim, H.U.1
-
12
-
-
84866539049
-
RELATCH: Relative Optimality in metabolic networks explains robust metabolic and regulatory responses to perturbations
-
Kim, J. and Reed, J.L. (2012) RELATCH: relative optimality in metabolic networks explains robust metabolic and regulatory responses to perturbations. Genome Biol., 13, R78.
-
(2012)
Genome Biol.
, vol.13
, pp. R78
-
-
Kim, J.1
Reed, J.L.2
-
13
-
-
84884386184
-
COMPLETE-MFA: Complementary parallel labeling experiments technique for metabolic flux analysis
-
Leighty, R.W. and Antoniewicz, M.R. (2013) COMPLETE-MFA: complementary parallel labeling experiments technique for metabolic flux analysis. Metab. Eng., 20, 49-55.
-
(2013)
Metab. Eng.
, vol.20
, pp. 49-55
-
-
Leighty, R.W.1
Antoniewicz, M.R.2
-
15
-
-
84973335042
-
Characterization of physiological responses to 22 gene knockouts in Escherichia coli central carbon metabolism
-
Long, C.P. et al. (2016) Characterization of physiological responses to 22 gene knockouts in Escherichia coli central carbon metabolism. Metab. Eng., 37, 102-113.
-
(2016)
Metab. Eng.
, vol.37
, pp. 102-113
-
-
Long, C.P.1
-
16
-
-
84901306814
-
Systematic evaluation of methods for integration of transcriptomic data into constraint-based models of metabolism
-
Machado, D. and Herrgård, M. (2014) Systematic evaluation of methods for integration of transcriptomic data into constraint-based models of metabolism. PLoS Comput. Biol., 10, e1003580.
-
(2014)
PLoS Comput. Biol.
, vol.10
, pp. e1003580
-
-
Machado, D.1
Herrgård, M.2
-
17
-
-
1642457253
-
The effects of alternate optimal solutions in constraint-based genome-scale metabolic models
-
Mahadevan, R. and Schilling, C.H. (2003) The effects of alternate optimal solutions in constraint-based genome-scale metabolic models. Metab. Eng., 5, 264-276.
-
(2003)
Metab. Eng.
, vol.5
, pp. 264-276
-
-
Mahadevan, R.1
Schilling, C.H.2
-
18
-
-
84964043843
-
In silico constraint-based strain optimization methods: The quest for optimal cell factories
-
Maia, P. et al. (2016) In silico constraint-based strain optimization methods: the quest for optimal cell factories. Microbiol. Mol. Biol. Rev., 80, 45-67.
-
(2016)
Microbiol. Mol. Biol. Rev.
, vol.80
, pp. 45-67
-
-
Maia, P.1
-
19
-
-
84941915231
-
Flux balance analysis with objective function defined by proteomics data - Metabolism of mycobacterium tuberculosis exposed to mefloquine
-
Montezano, D. et al. (2015) Flux balance analysis with objective function defined by proteomics data - metabolism of Mycobacterium tuberculosis exposed to mefloquine. PLoS One, 10, e0134014.
-
(2015)
PLoS One
, vol.10
, pp. e0134014
-
-
Montezano, D.1
-
20
-
-
80054069179
-
A comprehensive genome-scale reconstruction of Escherichia coli metabolism-2011
-
Orth, J.D. et al. (2011) A comprehensive genome-scale reconstruction of Escherichia coli metabolism-2011. Mol. Syst. Biol., 7, 535.
-
(2011)
Mol. Syst. Biol.
, vol.7
, pp. 535
-
-
Orth, J.D.1
-
21
-
-
0021383728
-
Equations and calculations for fermentations of butyric acid bacteria
-
Papoutsakis, E.T. (1984) Equations and calculations for fermentations of butyric acid bacteria. Biotechnol. Bioeng., 26, 174-187.
-
(1984)
Biotechnol. Bioeng.
, vol.26
, pp. 174-187
-
-
Papoutsakis, E.T.1
-
22
-
-
0344328817
-
An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR)
-
Reed, J.L. et al. (2003) An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR). Genome Biol., 4, R54.
-
(2003)
Genome Biol.
, vol.4
, pp. R54
-
-
Reed, J.L.1
-
23
-
-
34447523907
-
Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coli
-
Schuetz, R. et al. (2007) Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coli. Mol. Syst. Biol., 3, 119.
-
(2007)
Mol. Syst. Biol.
, vol.3
, pp. 119
-
-
Schuetz, R.1
-
24
-
-
0037069467
-
Analysis of Optimality in natural and perturbed metabolic networks
-
Segrè, D. et al. (2002) Analysis of optimality in natural and perturbed metabolic networks. Proc. Natl. Acad. Sci. U. S. A., 99, 15112-15117.
-
(2002)
Proc. Natl. Acad. Sci. U. S. A.
, vol.99
, pp. 15112-15117
-
-
Segrè, D.1
-
25
-
-
19644386033
-
Regulatory on/off minimization of metabolic flux changes after genetic perturbations
-
Shlomi, T. et al. (2005) Regulatory on/off minimization of metabolic flux changes after genetic perturbations. Proc. Natl. Acad. Sci. U. S. A., 102, 7695-7700.
-
(2005)
Proc. Natl. Acad. Sci. U. S. A.
, vol.102
, pp. 7695-7700
-
-
Shlomi, T.1
-
26
-
-
66749182798
-
(13)C-based metabolic flux analysis
-
Zamboni, N. et al. (2009) (13)C-based metabolic flux analysis. Nat. Protoc., 4, 878-892.
-
(2009)
Nat. Protoc.
, vol.4
, pp. 878-892
-
-
Zamboni, N.1
-
27
-
-
84941279254
-
CeCaFDB: A curated database for the documentation, visualization and comparative analysis of central carbon metabolic flux distributions explored by 13C-fluxomics
-
Zhang, Z. et al. (2015) CeCaFDB: a curated database for the documentation, visualization and comparative analysis of central carbon metabolic flux distributions explored by 13C-fluxomics. Nucleic Acids Res., 43, D549-D557.
-
(2015)
Nucleic Acids Res.
, vol.43
, pp. D549-D557
-
-
Zhang, Z.1
-
28
-
-
79951745716
-
IMAT: An integrative metabolic analysis tool
-
Zur, H. et al. (2010) iMAT: an integrative metabolic analysis tool. Bioinformatics, 26, 3140-3142.
-
(2010)
Bioinformatics
, vol.26
, pp. 3140-3142
-
-
Zur, H.1
|