The effects of alternate optimal solutions in constraint-based genome-scale metabolic models.

[1]  J. Reich,et al.  Energy metabolism of the cell : a theoretical treatise , 1981 .

[2]  Role of alanine-valine transaminase in Salmonella typhimurium and analysis of an avtA::Tn5 mutant , 1983, Journal of bacteriology.

[3]  B. Palsson,et al.  Metabolic Flux Balancing: Basic Concepts, Scientific and Practical Use , 1994, Bio/Technology.

[4]  J. Barbé,et al.  Promoter identification and expression analysis of Salmonella typhimurium and Escherichia coli nrdEF operons encoding one of two class I ribonucleotide reductases present in both bacteria , 1996, Molecular microbiology.

[5]  J. Bailey,et al.  Optimization of regulatory architectures in metabolic reaction networks , 1996, Biotechnology and bioengineering.

[6]  R. Heinrich,et al.  The Regulation of Cellular Systems , 1996, Springer US.

[7]  D. Fell.  Understanding the Control of Metabolism , 1996 .

[8]  H. Bonarius,et al.  Flux analysis of underdetermined metabolic networks: the quest for the missing constraints. , 1997 .

[9]  G. Stephanopoulos,et al.  Metabolic Engineering: Principles And Methodologies , 1998 .

[10]  D. Ramkrishna,et al.  Metabolic Engineering from a Cybernetic Perspective. 1. Theoretical Preliminaries , 1999, Biotechnology progress.

[11]  R. Heinrich,et al.  Metabolic Pathway Analysis: Basic Concepts and Scientific Applications in the Post‐genomic Era , 1999, Biotechnology progress.

[12]  J. Edwards,et al.  Systems Properties of the Haemophilus influenzaeRd Metabolic Genotype* , 1999, The Journal of Biological Chemistry.

[13]  B. Palsson,et al.  The Escherichia coli MG1655 in silico metabolic genotype: its definition, characteristics, and capabilities. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[14]  I. Grossmann,et al.  Recursive MILP model for finding all the alternate optima in LP models for metabolic networks , 2000 .

[15]  B. Palsson.  The challenges of in silico biology , 2000, Nature Biotechnology.

[16]  B. Palsson,et al.  Theory for the systemic definition of metabolic pathways and their use in interpreting metabolic function from a pathway-oriented perspective. , 2000, Journal of theoretical biology.

[17]  B. Palsson,et al.  In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data , 2001, Nature Biotechnology.

[18]  C Phalakornkule,et al.  A MILP-based flux alternative generation and NMR experimental design strategy for metabolic engineering. , 2001, Metabolic engineering.

[19]  R. Brent,et al.  Modelling cellular behaviour , 2001, Nature.

[20]  A. Burgard,et al.  Minimal Reaction Sets for Escherichia coli Metabolism under Different Growth Requirements and Uptake Environments , 2001, Biotechnology progress.

[21]  J. Bailey.  Complex biology with no parameters , 2001, Nature Biotechnology.

[22]  Jason A. Papin,et al.  Determination of redundancy and systems properties of the metabolic network of Helicobacter pylori using genome-scale extreme pathway analysis. , 2002, Genome research.

[23]  H. Kitano,et al.  Computational systems biology , 2002, Nature.

[24]  B. Palsson,et al.  Escherichia coli K-12 undergoes adaptive evolution to achieve in silico predicted optimal growth , 2002, Nature.

[25]  B. Palsson,et al.  Metabolic modelling of microbes: the flux-balance approach. , 2002, Environmental microbiology.

[26]  A. D. de Graaf,et al.  Analysis of carbon metabolism in Escherichia coli strains with an inactive phosphotransferase system by (13)C labeling and NMR spectroscopy. , 2002, Metabolic Engineering.

[27]  F. Doyle,et al.  Dynamic flux balance analysis of diauxic growth in Escherichia coli. , 2002, Biophysical journal.

[28]  H. Qian,et al.  Energy balance for analysis of complex metabolic networks. , 2002, Biophysical journal.

[29]  G. Church,et al.  Genome-Scale Metabolic Model of Helicobacter pylori 26695 , 2002, Journal of bacteriology.

[30]  Daniel A Beard,et al.  Extreme pathways and Kirchhoff's second law. , 2002, Biophysical journal.

[31]  G. Church,et al.  Analysis of optimality in natural and perturbed metabolic networks , 2002 .

[32]  B. Palsson,et al.  An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR) , 2003, Genome Biology.

[33]  Bernhard Ø. Palsson,et al.  Description and Interpretation of Adaptive Evolution of Escherichia coli K-12 MG1655 by Using a Genome-Scale In Silico Metabolic Model , 2003, Journal of bacteriology.

[34]  Jason A. Papin,et al.  Genome-scale microbial in silico models: the constraints-based approach. , 2003, Trends in biotechnology.