-
1
-
-
0028223931
-
Optimization of metabolism - the evolution of metabolic pathways toward simplicity through the game of the pentose phosphate cycle
-
Meléndez-Hevia E, Waddell TG, Montero F, (1994) Optimization of metabolism- the evolution of metabolic pathways toward simplicity through the game of the pentose phosphate cycle. J Theor Biol 166: 201-220.
-
(1994)
J Theor Biol
, vol.166
, pp. 201-220
-
-
Meléndez-Hevia, E.1
Waddell, T.G.2
Montero, F.3
-
2
-
-
0034973362
-
Evolutionary optimization of metabolic pathways. Theoretical reconstruction of the stoichiometry of ATP and NADH producing systems
-
Ebenhoh O, Heinrich R, (2001) Evolutionary optimization of metabolic pathways. Theoretical reconstruction of the stoichiometry of ATP and NADH producing systems. Bull Math Biol 63: 21-55.
-
(2001)
Bull Math Biol
, vol.63
, pp. 21-55
-
-
Ebenhoh, O.1
Heinrich, R.2
-
3
-
-
70349976815
-
Optimizing information flow in small genetic networks. III. A self-interacting gene
-
Tkacik G, Walczac AM, Bialek W, (2009) Optimizing information flow in small genetic networks. III. A self-interacting gene. Phys Rev E Stat Nonlin Soft Matter Phys 85: 031920.
-
(2009)
Phys Rev E Stat Nonlin Soft Matter Phys
, vol.85
, pp. 031920
-
-
Tkacik, G.1
Walczac, A.M.2
Bialek, W.3
-
4
-
-
77950960454
-
Optimizing information flow in small genetic networks. II. Feed-forward interactions
-
Walczac AM, Tkacik G, Bialek W, (2010) Optimizing information flow in small genetic networks. II. Feed-forward interactions. Phys Rev E Stat Nonlin Soft Matter Phys 81: 041905.
-
(2010)
Phys Rev E Stat Nonlin Soft Matter Phys
, vol.81
, pp. 041905
-
-
Walczac, A.M.1
Tkacik, G.2
Bialek, W.3
-
5
-
-
34447523907
-
Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coli
-
Schuetz R, Kuepfer L, Sauer U, (2007) Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coli. Mol Syst Biol 3: 15.
-
(2007)
Mol Syst Biol
, vol.3
, pp. 15
-
-
Schuetz, R.1
Kuepfer, L.2
Sauer, U.3
-
6
-
-
34447557916
-
Principles of optimal metabolic network operation
-
doi:10.1038/msb4100169
-
Nielsen J, (2007) Principles of optimal metabolic network operation. Mol Syst Biol doi:10.1038/msb4100169.
-
(2007)
Mol Syst Biol
-
-
Nielsen, J.1
-
7
-
-
46349105936
-
Optimization in Computational Systems Biology
-
doi:10.1186/1752-0509-2-47
-
Banga JR, (2008) Optimization in Computational Systems Biology. BMC Syst Biol doi:10.1186/1752-0509-2-47.
-
(2008)
BMC Syst Biol
-
-
Banga, J.R.1
-
8
-
-
0032406131
-
Non-linear optimization of biochemical pathways: applications to metabolic engineering and parameter estimation
-
Mendes P, Kell DB, (1998) Non-linear optimization of biochemical pathways: applications to metabolic engineering and parameter estimation. Bioinformatics 14: 869-883.
-
(1998)
Bioinformatics
, vol.14
, pp. 869-883
-
-
Mendes, P.1
Kell, D.B.2
-
9
-
-
77953296954
-
Multi-objective mixed integer strategy for the optimisation of biological networks
-
Sendin JOH, Exler O, Banga JR, (2010) Multi-objective mixed integer strategy for the optimisation of biological networks. IET Syst Biol 4: 236-248.
-
(2010)
IET Syst Biol
, vol.4
, pp. 236-248
-
-
Sendin, J.O.H.1
Exler, O.2
Banga, J.R.3
-
10
-
-
13244279624
-
Making sense of the metabolome using evolutionary computation: seeing the wood with the trees
-
Goodacre R, (2005) Making sense of the metabolome using evolutionary computation: seeing the wood with the trees. J Exp Bot 56: 245-254.
-
(2005)
J Exp Bot
, vol.56
, pp. 245-254
-
-
Goodacre, R.1
-
11
-
-
34248385237
-
Multiobjective optimization in bioinformatics and computational biology
-
Handl J, Kell DB, Knowles J, (2007) Multiobjective optimization in bioinformatics and computational biology. IEEE/ACM Trans Comput Biol Bioinf 4: 279-291.
-
(2007)
IEEE/ACM Trans Comput Biol Bioinf
, vol.4
, pp. 279-291
-
-
Handl, J.1
Kell, D.B.2
Knowles, J.3
-
12
-
-
0037399803
-
Multi-criterion optimization for genetic network modeling
-
van Someren EP, Wessels LFA, Backer E, Reinders MJT, (2003) Multi-criterion optimization for genetic network modeling. Signal Proc 83: 763-775.
-
(2003)
Signal Proc
, vol.83
, pp. 763-775
-
-
van Someren, E.P.1
Wessels, L.F.A.2
Backer, E.3
Reinders, M.J.T.4
-
13
-
-
71749121782
-
A multi-objective differential evolutionary approach toward more stable gene regulatory networks
-
Esmaeili A, Jacob C, (2009) A multi-objective differential evolutionary approach toward more stable gene regulatory networks. BioSyst 98: 127-136.
-
(2009)
BioSyst
, vol.98
, pp. 127-136
-
-
Esmaeili, A.1
Jacob, C.2
-
14
-
-
71749121818
-
A cellular mechanism for multi-robot construction via evolutionary multi-objective optimization of a gene regulatory network
-
Guo H, Meng Y, Jin Y, (2009) A cellular mechanism for multi-robot construction via evolutionary multi-objective optimization of a gene regulatory network. BioSyst 98: 193-203.
-
(2009)
BioSyst
, vol.98
, pp. 193-203
-
-
Guo, H.1
Meng, Y.2
Jin, Y.3
-
15
-
-
84861663597
-
Evolutionary Trade-Offs, Pareto Optimality, and the Geometry of Phenotype Space
-
Shoval O, Sheftel H, Shinar G, Hart Y, Ramote O, et al. (2012) Evolutionary Trade-Offs, Pareto Optimality, and the Geometry of Phenotype Space. Science 336: 1157-1160.
-
(2012)
Science
, vol.336
, pp. 1157-1160
-
-
Shoval, O.1
Sheftel, H.2
Shinar, G.3
Hart, Y.4
Ramote, O.5
-
16
-
-
84859471521
-
Regulatory architecture determines optimal regulation of gene expression in metabolic pathways
-
Chubukov V, Zuleta IA, Li H, (2012) Regulatory architecture determines optimal regulation of gene expression in metabolic pathways. Proc Nat Acad Sci USA 109: 5127-5132.
-
(2012)
Proc Nat Acad Sci USA
, vol.109
, pp. 5127-5132
-
-
Chubukov, V.1
Zuleta, I.A.2
Li, H.3
-
17
-
-
0029096741
-
Genetic-algorithm selection of a regulatory structure that directs flux in a simple metabolic model
-
Gilman A, Ross J, (1995) Genetic-algorithm selection of a regulatory structure that directs flux in a simple metabolic model. Biophys J 694: 1321-1333.
-
(1995)
Biophys J
, vol.694
, pp. 1321-1333
-
-
Gilman, A.1
Ross, J.2
-
19
-
-
69549124230
-
An evolutionary method for complex-process optimization
-
Egea JA, Marti R, Banga JR, (2010) An evolutionary method for complex-process optimization. Comput Oper Res 37: 315-324.
-
(2010)
Comput Oper Res
, vol.37
, pp. 315-324
-
-
Egea, J.A.1
Marti, R.2
Banga, J.R.3
-
20
-
-
65349151317
-
Extensions of a Multistart Clustering Algorithm for Constrained Global Optimization Problems
-
Sendín JOH, Banga JR, Csendes T, (2009) Extensions of a Multistart Clustering Algorithm for Constrained Global Optimization Problems. Ind Eng Chem Res 48: 3014-3023.
-
(2009)
Ind Eng Chem Res
, vol.48
, pp. 3014-3023
-
-
Sendín, J.O.H.1
Banga, J.R.2
Csendes, T.3
-
21
-
-
58149112640
-
Multi-Objective Optimization of Biological Networks for Prediction of Intracellular Fluxes
-
Sendín JOH, Alonso A, Banga JR, (2010) Multi-Objective Optimization of Biological Networks for Prediction of Intracellular Fluxes. Adv Soft Comput 49: 197-205.
-
(2010)
Adv Soft Comput
, vol.49
, pp. 197-205
-
-
Sendín, J.O.H.1
Alonso, A.2
Banga, J.R.3
-
22
-
-
33746828943
-
Model-based optimization of biochemical systems using multiple objectives: a comparison of several solution strategies
-
Sendín JOH, Vera J, Torres NV, Banga JR, (2006) Model-based optimization of biochemical systems using multiple objectives: a comparison of several solution strategies. Math Comp Model Dyn 12: 469-487.
-
(2006)
Math Comp Model Dyn
, vol.12
, pp. 469-487
-
-
Sendín, J.O.H.1
Vera, J.2
Torres, N.V.3
Banga, J.R.4
-
23
-
-
80051859362
-
Understanding knee points in bicriteria problems and their implications as preferred solution principles
-
Deb K, Gupta S, (2011) Understanding knee points in bicriteria problems and their implications as preferred solution principles. Eng Optimiz 43: 1175-1204.
-
(2011)
Eng Optimiz
, vol.43
, pp. 1175-1204
-
-
Deb, K.1
Gupta, S.2
-
24
-
-
0032348480
-
Normal-boundary intersection: A new method for generating the Pareto surface in nonlinear multicriteria optimization problems
-
Das I, Dennis JE, (1998) Normal-boundary intersection: A new method for generating the Pareto surface in nonlinear multicriteria optimization problems. SIAM J Optim 8: 631-657.
-
(1998)
SIAM J Optim
, vol.8
, pp. 631-657
-
-
Das, I.1
Dennis, J.E.2
-
25
-
-
0023363489
-
Norm methods and partial weighting in multicriterion optimization of structures
-
Koski J, Silvennoinen R, (1987) Norm methods and partial weighting in multicriterion optimization of structures, Int J Numer Methods Eng 24: 1101-1121.
-
(1987)
Int J Numer Methods Eng
, vol.24
, pp. 1101-1121
-
-
Koski, J.1
Silvennoinen, R.2
-
27
-
-
0036530772
-
A fast and elitist multiobjective genetic algorithm: NSGA-II
-
Deb K, Pratap A, Agarwal S, Meyariban T, (2002) A fast and elitist multiobjective genetic algorithm: NSGA-II. IEEE Trans Evol Comput 6: 182-197.
-
(2002)
IEEE Trans Evol Comput
, vol.6
, pp. 182-197
-
-
Deb, K.1
Pratap, A.2
Agarwal, S.3
Meyariban, T.4
-
29
-
-
0021474417
-
Onset of birhythmicity in a regulated biochemical system
-
Moran F, Goldbeter A, (1984) Onset of birhythmicity in a regulated biochemical system. Biophys Chem 20: 149-156.
-
(1984)
Biophys Chem
, vol.20
, pp. 149-156
-
-
Moran, F.1
Goldbeter, A.2
-
30
-
-
70349782009
-
Computational design tools for synthetic biology
-
Marchisio MA, Stelling J, (2009) Computational design tools for synthetic biology. Curr Opin Biotechnol 20: 479-85.
-
(2009)
Curr Opin Biotechnol
, vol.20
, pp. 479-485
-
-
Marchisio, M.A.1
Stelling, J.2
|