-
1
-
-
47149095277
-
Towards kinetic modeling of global metabolic networks: Methylobacterium extorquens AM1 growth as validation
-
Ao, P. et al. (2008) Towards kinetic modeling of global metabolic networks: Methylobacterium extorquens AM1 growth as validation. Chin. J. Biotechnol., 24, 980-994.
-
(2008)
Chin. J. Biotechnol.
, vol.24
, pp. 980-994
-
-
Ao, P.1
-
2
-
-
33747832812
-
BiologicalNetworks: visualization and analysis tool for systems biology
-
Baitaluk, M. et al. (2006) BiologicalNetworks: visualization and analysis tool for systems biology. Nucleic Acids Res., 34, W466-W471.
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Baitaluk, M.1
-
3
-
-
0031021873
-
Glycolysis in bloodstream form Trypanosoma brucei can be understood in terms of the kinetics of the glycolytic enzymes
-
Bakker, B.M. et al. (1997) Glycolysis in bloodstream form Trypanosoma brucei can be understood in terms of the kinetics of the glycolytic enzymes. J. Biol. Chem., 272, 3207-3215.
-
(1997)
J. Biol. Chem.
, vol.272
, pp. 3207-3215
-
-
Bakker, B.M.1
-
4
-
-
0032611513
-
Modeling gene expression with differential equations
-
Chen, T. et al. (1999) Modeling gene expression with differential equations. Pac. Symp. Biocomput., 4, 29-40.
-
(1999)
Pac. Symp. Biocomput.
, vol.4
, pp. 29-40
-
-
Chen, T.1
-
6
-
-
0032612220
-
Linear modeling of mRNA expression levels during CNS development and injury
-
D'haeseleer, P. et al. (1999) Linear modeling of mRNA expression levels during CNS development and injury. Pac. Symp. Biocomput., 4, 41-52.
-
(1999)
Pac. Symp. Biocomput.
, vol.4
, pp. 41-52
-
-
D'haeseleer, P.1
-
7
-
-
3042595010
-
Grid Cellware: The first Grid-enabled tool for modeling and simulating cellular processes
-
Dhar, P. et al. (2004) Grid Cellware: The first Grid-enabled tool for modeling and simulating cellular processes. Bioinformatics, 20, 1319-1321.
-
(2004)
Bioinformatics
, vol.20
, pp. 1319-1321
-
-
Dhar, P.1
-
8
-
-
44949099336
-
SBMLsqueezer: a CellDesigner plug-in to generate kinetic rate equations for biochemical networks
-
Dräger, A. et al. (2008) SBMLsqueezer: a CellDesigner plug-in to generate kinetic rate equations for biochemical networks. BMC Syst. Biol., 2, 39
-
(2008)
BMC Syst. Biol.
, vol.2
, pp. 39
-
-
Dräger, A.1
-
9
-
-
0037313750
-
Genome-scale reconstruction of the Saccharomyces cerevisiae metabolic network
-
Förster, J. et al. (2003) Genome-scale reconstruction of the Saccharomyces cerevisiae metabolic network. Genome Res., 13, 244-253.
-
(2003)
Genome Res.
, vol.13
, pp. 244-253
-
-
Förster, J.1
-
10
-
-
9444266171
-
CellDesigner: a process diagram editor for gene-regulatory and biochemical networks
-
Funahashi, A. et al. (2003) CellDesigner: a process diagram editor for gene-regulatory and biochemical networks. BIOSILICO, 1, 159-162.
-
(2003)
BIOSILICO
, vol.1
, pp. 159-162
-
-
Funahashi, A.1
-
11
-
-
13244292328
-
Computation of elementary modes: a unifying framework and the new binary approach
-
Gagneur, J. and Klamt, S. (2004) Computation of elementary modes: a unifying framework and the new binary approach. BMC Bioinformatics, 5, 175.
-
(2004)
BMC Bioinformatics
, vol.5
, pp. 175
-
-
Gagneur, J.1
Klamt, S.2
-
12
-
-
42949122680
-
Common gene expression strategies revealed by genome-wide analysis in yeast
-
Garcia-Martinez, J. et al. (2007) Common gene expression strategies revealed by genome-wide analysis in yeast. Genome Biol., 8, R222.
-
(2007)
Genome Biol.
, vol.8
-
-
Garcia-Martinez, J.1
-
13
-
-
35748977901
-
Universally sloppy parameter sensitivities in systems biology models
-
Gutenkunst, R.N. et al. (2007) Universally sloppy parameter sensitivities in systems biology models. PLoS Comput. Biol., 3, 189.
-
(2007)
PLoS Comput. Biol.
, vol.3
, pp. 189
-
-
Gutenkunst, R.N.1
-
14
-
-
0035846723
-
Full scale model of glycolysis in Saccharomyces cerevisiae
-
Hynne, F. et al. (2001) Full scale model of glycolysis in Saccharomyces cerevisiae. Biophys. Chem., 94, 121-163.
-
(2001)
Biophys. Chem.
, vol.94
, pp. 121-163
-
-
Hynne, F.1
-
15
-
-
0037342537
-
The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models
-
Hucka, M. et al. (2003) The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models. Bioinformatics, 19, 524-531.
-
(2003)
Bioinformatics
, vol.19
, pp. 524-531
-
-
Hucka, M.1
-
16
-
-
42949164125
-
Formulating genome-scale kinetic models in the post-genome era
-
Jamshidi, N. and Palsson, B.Ø. (2008) Formulating genome-scale kinetic models in the post-genome era. Mol. Syst. Biol., 4, 171.
-
(2008)
Mol. Syst. Biol.
, vol.4
, pp. 171
-
-
Jamshidi, N.1
Palsson, B.Ø.2
-
17
-
-
0842309206
-
Inferring gene networks from time series microarray data using dynamic Bayesian networks
-
Kim, S.Y. et al. (2003) Inferring gene networks from time series microarray data using dynamic Bayesian networks. Brief. Bioinform., 4, 228-235.
-
(2003)
Brief. Bioinform.
, vol.4
, pp. 228-235
-
-
Kim, S.Y.1
-
18
-
-
33847260655
-
Boolean networks using the chi-square test for inferring large-scale gene regulatory networks
-
Kim, H. et al. (2007) Boolean networks using the chi-square test for inferring large-scale gene regulatory networks. BMC Bioinformatics, 8, 37.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 37
-
-
Kim, H.1
-
19
-
-
33947472850
-
A schematic method of deriving the rate laws for enzyme-catalyzed reactions
-
King, E.L. and Altman, C. (1956) A schematic method of deriving the rate laws for enzyme-catalyzed reactions. J. Phys. Chem., 60, 1375-1378.
-
(1956)
J. Phys. Chem.
, vol.60
, pp. 1375-1378
-
-
King, E.L.1
Altman, C.2
-
20
-
-
0036500993
-
Systems biology: a brief overview
-
Kitano, H. (2002) Systems biology: a brief overview. Science, 295, 1662-1664.
-
(2002)
Science
, vol.295
, pp. 1662-1664
-
-
Kitano, H.1
-
21
-
-
0242380634
-
CADLIVE for constructing a large-scale biochemical network based on a simulation-directed notation and its application to yeast cell cycle
-
Kurata, H. et al. (2003) CADLIVE for constructing a large-scale biochemical network based on a simulation-directed notation and its application to yeast cell cycle. Nucleic Acids Res., 31, 4071-4084.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 4071-4084
-
-
Kurata, H.1
-
22
-
-
0035982810
-
A computational model for glycogenolysis in skeletal muscle
-
Lambeth, M.J. and Kushmerick, M.J. (2002) A computational model for glycogenolysis in skeletal muscle. Ann. Biomed. Eng., 30, 808-827.
-
(2002)
Ann. Biomed. Eng.
, vol.30
, pp. 808-827
-
-
Lambeth, M.J.1
Kushmerick, M.J.2
-
23
-
-
38549107133
-
Comparison of probabilistic Boolean network and dynamic Bayesian network approaches for inferring gene regulatory networks
-
Li, P. (2007) Comparison of probabilistic Boolean network and dynamic Bayesian network approaches for inferring gene regulatory networks. BMC Bioinformatics, 8 (Suppl. 7), S13.
-
(2007)
BMC Bioinformatics
, vol.8
, Issue.SUPPL. 7
-
-
Li, P.1
-
24
-
-
33845368513
-
COPASI: a COmplex PAthway SImulator
-
Mendes, P. et al. (2006) COPASI: a COmplex PAthway SImulator. Bioinformatics, 22, 3067-3074.
-
(2006)
Bioinformatics
, vol.22
, pp. 3067-3074
-
-
Mendes, P.1
-
26
-
-
4544344218
-
Web-based kinetic modelling using JWS Online
-
Olivier, B.G. and Snoep, J.L. (2004) Web-based kinetic modelling using JWS Online. Bioinformatics, 20, 2143-2144.
-
(2004)
Bioinformatics
, vol.20
, pp. 2143-2144
-
-
Olivier, B.G.1
Snoep, J.L.2
-
27
-
-
0036038886
-
Schemes of flux control in a model of Saccharomyces cerevisiae glycolysis
-
Pritchard, L. and Kell, D. (2002) Schemes of flux control in a model of Saccharomyces cerevisiae glycolysis. Eur. J. Biochem., 269, 3894-3904.
-
(2002)
Eur. J. Biochem.
, vol.269
, pp. 3894-3904
-
-
Pritchard, L.1
Kell, D.2
-
28
-
-
34249889888
-
Storing and annotating of kinetic data
-
Rojas, I. et al. (2007) Storing and annotating of kinetic data. In Silico Biol., 7, S37-S44
-
(2007)
In Silico Biol.
, vol.7
-
-
Rojas, I.1
-
29
-
-
0036165418
-
BRENDA: a resource for enzyme data and metabolic information
-
Schomburg, D. et al. (2002) BRENDA: a resource for enzyme data and metabolic information. Trends Biochem. Sci., 27, 54-56.
-
(2002)
Trends Biochem. Sci.
, vol.27
, pp. 54-56
-
-
Schomburg, D.1
-
30
-
-
33746083686
-
Quantitative elementary mode analysis of metabolic pathways: the example of yeast glycolysis
-
Schwartz, J.M. and Kanehisa, M. (2006) Quantitative elementary mode analysis of metabolic pathways: the example of yeast glycolysis. BMC Bioinformatics, 7, 186
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 186
-
-
Schwartz, J.M.1
Kanehisa, M.2
-
31
-
-
35448974147
-
Something from nothing: bridging the gap between constraint-based and kinetic modelling
-
Smallbone, K. et al. (2007) Something from nothing: bridging the gap between constraint-based and kinetic modelling. FEBS J., 274, 5576-5585.
-
(2007)
FEBS J.
, vol.274
, pp. 5576-5585
-
-
Smallbone, K.1
-
32
-
-
0033725197
-
Mathematical modeling of gene networks
-
Smolen, P. et al. (2003) Mathematical modeling of gene networks. Neuron, 26, 567-580
-
(2003)
Neuron
, vol.26
, pp. 567-580
-
-
Smolen, P.1
-
33
-
-
33747061013
-
Structural kinetic modelling of metabolic networks
-
Steuer, R. et al. (2006) Structural kinetic modelling of metabolic networks. Proc. Natl Acad. Sci. USA, 103, 11868-11873.
-
(2006)
Proc. Natl Acad. Sci. USA
, vol.103
, pp. 11868-11873
-
-
Steuer, R.1
-
34
-
-
0033857139
-
Can yeast glycolysis be understood in terms of in vitro kinetics of the constituent enzymes? Testing biochemistry
-
Teusink, B. et al. (2000) Can yeast glycolysis be understood in terms of in vitro kinetics of the constituent enzymes? Testing biochemistry. Eur. J. Biochem., 267, 5313-5329.
-
(2000)
Eur. J. Biochem.
, vol.267
, pp. 5313-5329
-
-
Teusink, B.1
-
35
-
-
0033031386
-
E-CELL: software environment for whole cell simulation
-
Tomita, M. et al. (1999) E-CELL: software environment for whole cell simulation. Bioinformatics, 15, 72-84.
-
(1999)
Bioinformatics
, vol.15
, pp. 72-84
-
-
Tomita, M.1
-
36
-
-
12344331451
-
The JigCell model builder and run manager
-
Vass, M. et al. (2004) The JigCell model builder and run manager. Bioinformatics, 18, 3680-3681.
-
(2004)
Bioinformatics
, vol.18
, pp. 3680-3681
-
-
Vass, M.1
-
37
-
-
12344257752
-
GeneNetwork: an interactive tool for reconstruction of genetic networks using microarray data
-
Wu, C.C. et al. (2004) GeneNetwork: an interactive tool for reconstruction of genetic networks using microarray data. Bioinformatics, 20, 3691-3693.
-
(2004)
Bioinformatics
, vol.20
, pp. 3691-3693
-
-
Wu, C.C.1
-
38
-
-
33750415038
-
SBML-PET: a Systems Biology Markup Language-based parameter estimation tool
-
Zi, Z. and Klipp, E. (2006) SBML-PET: a Systems Biology Markup Language-based parameter estimation tool. Bioinformatics, 22, 2704-2705.
-
(2006)
Bioinformatics
, vol.22
, pp. 2704-2705
-
-
Zi, Z.1
Klipp, E.2
|