Biology Reference
In-Depth Information
27.
Edwards, J. S., R. U. Ibarra and B.O. Palsson. In silico predictions of
Escherichia coli
metabolic capabilities are consistent with experimental
data
. Nature Biotechnology
, 19:125-30, 2001.
28.
Beard, D. A., S. D. Liang and H. Qian. Energy balance for analysis of
complex metabolic networks
. Biophysical Journal
, 83(1):79-86, 2002.
29.
Price, N. D., et al. Extreme pathways and Kirchhoff's second law
.
Biophysical Journal
, 83(5):2879-82, 2002.
30.
Qian, H., D. A. Beard and S. D. Liang. Stoichiometric network theory for
nonequilibrium biochemical systems
. European Journal of Biochemistry
,
270(3):415-21, 2003.
31.
Lee, S., et al. Recursive MILP model for finding all the alternate optima in
LP models for metabolic networks
. Computers in Chemical Engineering
,
24:711-16, 2000.
32.
Reed, J. L. and B. O. Palsson. Genome-scale in silico models of
E. coli
have
multiple equivalent phenotypic states: assessment of correlated reaction
subsets that comprise network states
. Genome Research
, 14(9):1797-805, 2004.
33.
Mahadevan, R. and C. H. Schilling. The effects of alternate optimal
solutions in constraint-based genome-scale metabolic models
. Metabolic
Engineering
, 5(4):264-76, 2003.
34.
Edwards, J. S. and B. O. Palsson. Robustness analysis of the
Escherichia coli
metabolic network
. Biotechnology Progress
, 16(6):927-39, 2000.
35.
Chvatal, V.
Linear Programming
. W. H. Freeman, New York, 1983.
36.
Ibarra, R. U., J. S. Edwards and B. O. Palsson.
Escherichia coli
K-12 under-
goes adaptive evolution to achieve in silico predicted optimal growth
.
Nature
, 420(6912):186-9, 2002.
37.
Ibarra, R. U., et al. Quantitative analysis of
Escherichia coli
metabolic
phenotypes within the context of phenotypic phase planes
. Journal of
Molecular Microbiology and Biotechnology
, 6(2):101-8, 2004.
38.
Segre, D., D. Vitkup and G. M. Church. Analysis of optimality in natural and
perturbed metabolic networks
. Proceedings of the National Academy of
Sciences USA
, 99(23):15112-17, 2002.
39.
Shlomi, T., O. Berkman and E. Ruppin. Regulatory on/off minimization
of metabolic flux changes after genetic perturbations.
Proceedings of the
National Academy of Sciences USA
, 102(21):7695-700, 2005.
40.
Burgard, A. P. and C. D. Maranas. Optimization-based framework for
inferring and testing hypothesized metabolic objective functions
.
Biotechnology and Bioengineering
, 82(6):670-7, 2003.
41.
Price, N. D., J. L. Reed and B. O. Palsson. Genome-scale models of micro-
bial cells: evaluating the consequences of constraints
. Nature Reviews in
Microbiology
, 2(11):886-97, 2004.
42.
Schilling, C. H., D. Letscher and B. O. Palsson. Theory for the systemic
definition of metabolic pathways and their use in interpreting metabolic
function from a pathway-oriented perspective
.
Journal of Theoretical
Biology
, 203(3):229-48, 2000.
43.
Schuster, S., T. Dandekar and D. A. Fell. Detection of elementary flux
modes in biochemical networks: a promising tool for pathway analysis
and metabolic engineering
. Trends in Biotechnology
, 17(2):53-60, 1999.
44.
Papin, J. A., et al. Comparison of network-based pathway analysis
methods
. Trends in Biotechnology
, 22(8):400-5, 2004.
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