Structure and parameter estimation for cell systems biology models

GECCO'08: Proceedings of the 10th Annual Conference on Genetic and Evolutionary Computation 2008

Volumn , Issue , 2008, Pages 331-338

  Romero Campero, Francisco J ^a   Cámara, Miguel ^a   Cao, Hongqing ^a   Krasnogor, Natalio ^a  

^a UNIVERSITY OF NOTTINGHAM   (United Kingdom)

Author keywords

Genetic algorithms; Memetic algorithm; Modular biology; P systems; Synthetic biology; Systems biology

Indexed keywords

GENETIC ALGORITHMS; STOCHASTIC MODELS; STOCHASTIC SYSTEMS; SYNTHETIC BIOLOGY;

COMPLEX MOLECULAR SYSTEMS; COMPUTATIONAL PARADIGM; INCREMENTAL METHODOLOGY; MEMETIC ALGORITHMS; MOLECULAR COMPLEXATION; P SYSTEMS; SYSTEMS BIOLOGY; TRANSCRIPTIONAL NETWORKS;

PARAMETER ESTIMATION;

EID: 57349119885     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1145/1389095.1389153     Document Type: Conference Paper

References (18)

1. U. Alon. An Introduction to Systems Biology. Matematical and Computational Biology Series. Chapman & Hall/Crc., 2006.
2. T. Back, U. Hammel, and H.-P. Schwefel. Evolutionary computation: Comments on the history and current state. IEEE Transactions on Evolutionary Computation, 1(1):5-16, 1997.
3. S. A. Benner and A. M. Sismour. Synthetic biology. Nature Review, Genetics, 6:533-543, 2005.
4. D. T. Gillespie. Stochastic simulation of chemical kinetics. Annu. Rev. Phys. Chem., 58:35-55, 2007.
5. D. E. Goldberg. Genetic Algorithms in Search, Optimization and Machine Learning. Reading, MA: Addison Welsey, 1989.
6. L. H. Hartwell, J. J. Hopfield, S. Leibler, and A. W. Murray. From molecular to modular cell biology. Nature, Impacts, 402:c47-c52, 1999.
7. R. Hinterding, Z. Michalewicz, and A. Eiben. Adaptation in evolutionary computation: a survey. In Proc. 4th International Conference on Evolutionary Computation, pages 65-69. IEEE Press, 1997.
8. N. Krasnogor and J. Smith. A tutorial for competent memetic algorithms: model, taxonomy and design issues. IEEE Transactions on Evolutionary Computation, 9(5):474- 488, 2005.
9. M. Z. Kwiatkowska, G. Norman, and D. Parker. Probabilistic model checking in practice: case studies with prism. SIGMETRICS Performance Evaluation Review, 32(4):16-21, 2005.
10. M. Mitchell. An introduction to genetic algorithm. MIT Press, Cambridge MA, 1996.
11. B. O. Palsson. Systems Biology: Properties of Reconstructed Networks. Cambridge University Press., 2006.
12. M. J. Pérez-Jiménez and F. J. Romero-Campero. P systems, a new computational modelling tool for systems biology. Transactions on Computational Systems Biology VI, pages 176-197, 2006.
13. G. Pǎun. Membrane Computing: An Introduction. Springer-Verlag., Berlin, 2002.
14. F. J. Romero-Campero and M. J. Pérez-Jiménez. A model of the quorum sensing system in vibrio fischeri using p systems. Artificial Life, 14(1):95-109, 2008.
15. F. J. Romero-Campero and M. J. Pérez-Jiménez. Modelling gene expression control using p systems: The lac operon, a case study. BioSystems, 91 (3):438-457, 2008.
16. Z. Szallasi, J. Stelling, and V. Periwal. System modeling in cellular biology. MIT press, 2006.
17. D. Thieffry, A. Huerta, E. Perez-Rueda, and J. Collado-Vides. From specific gene regulation to genomic networks: A global analysis of transcriptional regulation in escherichia coli. BioEssays, 20(5):433-440, 1998.
18. J. Yu, H. Cao, Y. He. A new tree structure code for equivalent circuit and evolutionary estimation of parameters. Chemometrics and intelligent laboratory systems, 85:27-39, 2007.