O, Wolkenhauer, H. Kitano and K. -H. Cho, 'Systems biology: Looking at opportunities and challenges in applying systems theory to molecular and cell biology', IEEE Control Systems Magazine, vol. 23, no. 4, pp. 38-43, 2003https://doi.org/10.1109/MCS.2003.1213602
S. Y. Lee, D. Y. Lee, and T. Y. Kim, 'Systems biotechnology for strain improvement', Trends in Biotechnology (in press)
I. Goryanin, T. C. Hodgman and E. Selkov, 'Mathematical simulation and analysis of cellular metabolism and regulation', Bioinformatics, vol. 15, pp. 749-758, 1999https://doi.org/10.1093/bioinformatics/15.9.749
A. Pettinen, T. Aho, O. Smolander, T. Manninen, A. Saarinen, K. Taattola, O. Yli-Harja and M. Linne, 'Simulation tools for biochemical networks: evaluation of performance and usability', Bioinformatics, vol. 21. pp. 357-363, 2005https://doi.org/10.1093/bioinformatics/bti018
U. M. Ascher and L. R. Petzold, 'Computer methods for ordinary differential equations and differential-algebraic equations', SIAM, 1998
T. C. Meng, S. Somani and P. Dhar, 'Modelling and Simulation of Biological Systems with Stiochasticity, In Silico Biology, vol. 4, 0024, 2004
Li and H. Rabitz, 'A general analysis of approzimate lumping in chemical kinetics', Chemical Enineering Science, vol. 45, no. 4, pp. 977-1002, 1990https://doi.org/10.1016/0009-2509(90)85020-E
N. Novere and T. S. Shimizu, 'Stochsim: Modeling of Stochastic Biomolecular Processes,' Bioinformatics, vol. 6, no. 6, pp. 575-576, June 2001
T. R. Klehl, R. M. Mattheyses and M. K. Simmons, 'Hybrid simulation of cellular behavior', Bioinformatics, vol. 20, no. 3, pp. 316-322, 2004https://doi.org/10.1093/bioinformatics/btg409
M. Hucka, A. Finney, H. M. Sauro, H. Bolouri, J. C. Doyle, and H. Kitano, 'The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models', Bioinformatics, vol. 19, pp. 524-531. 2002https://doi.org/10.1093/bioinformatics/btg015
M. Hucka, A. Finney, B. J. Bornstein et al., 'Evolving a lingua franca and associated software infrastructure for computational systems biology: the Systems Biology Markup Language (SBML) project', Systems Biology, vol. 1. no. 1. 2004
D. Y. Lee, H. Yun, S. Park and S. Y. Lee, 'MetaFluxNet.: the management of metabolic reaction information and quantitative metabolic flux analysis', Bioinformatics, vol. 19, no. 16, pp. 2144-2146, 2003https://doi.org/10.1093/bioinformatics/btg271
M. Tomita, K. Hashimoto, K. Takahashi, T. S. Shimizu, Y. Matsuzaki, F. Miyoshi et al., 'E-CELL: software environment for whole-cell simulation', Bioinformatics, vol. 15, pp. 7284, 1999
P. Mendes, 'Biochemistry by numbers: simulation of biochemical pathways with Gepasi3', Trends Biochem. Sci., vol. 22, pp. 361-363, 1997https://doi.org/10.1016/S0968-0004(97)01103-1
L. M. Loew and J. C. Schaff, 'The Virtual Cell: A Software Environment for Computational Cell Biology', Trends in Biotechnology, vol. 19, no. 10, pp. 401-406, Oct. 2001https://doi.org/10.1016/S0167-7799(01)01740-1
J. L. Snoep and B. G. Oliver, 'JWS Online Cellular Systems Modelling and Microbiology', Microbiology Comment, July 2003
S. Kimura, T. Kawasaki, M. Hatakeyama, T. Naka, F. Konishi and A. Konagaya, 'OBIYagns: a grid-based biochemical simulator with a parameter estimator', Bioinformatics, vol. 20, no. 10, pp. 1646-1648, 2004https://doi.org/10.1093/bioinformatics/bth122
S. Okino, M. S. and Michael L. Mavrovouniotis, 'Simplification of Mathematical Models of Chemical Reaction Systems', Chemical Reviews, vol. 98, no. 2, 1998