Stable bayesian parameter estimation for biological dynamical systems

Proceedings - 12th IEEE International Conference on Computational Science and Engineering, CSE 2009

Volumn 1, Issue , 2009, Pages 148-157

  Busetto, Alberto Giovanni ^a   Buhmann, Joachim M ^a  

^a ETH ZURICH   (Switzerland)

Author keywords

Bayesian inference; Dynamical systems; Parameter estimation; Stability; Systems biology

Indexed keywords

APPROXIMATE INFERENCE; BAYESIAN INFERENCE; BAYESIAN PARAMETER ESTIMATION; BIOLOGICAL DYNAMICAL SYSTEMS; COMPUTATIONAL COSTS; COMPUTATIONAL SCIENCE AND ENGINEERINGS; DYNAMICAL BEHAVIORS; DYNAMICAL MODEL; INSTABILITY PROBLEMS; KINETIC RATE CONSTANTS; NOISE MODELLING; PARAMETER SPACES; PARAMETER UNCERTAINTY; PARTICLE CLUSTERING; REGIONS OF INTEREST; RESAMPLING; RESAMPLING SCHEME; SEQUENTIAL MONTE CARLO; STABILITY SYSTEMS; SYSTEMS BIOLOGY;

BAYESIAN NETWORKS; BIOLOGY; DYNAMICAL SYSTEMS; INFERENCE ENGINES; METAL ANALYSIS; NONLINEAR SYSTEMS; PARAMETER ESTIMATION; RATE CONSTANTS; THREE TERM CONTROL SYSTEMS;

SYSTEM STABILITY;

EID: 70749147547     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/CSE.2009.134     Document Type: Conference Paper

References (17)

1. Arulampalam, M.S., Maskell, S., Gordon, N. and Clapp, T., (2002) A Tutorial on Particle Filters for Online Nonlinear/Non-Gaussian Bayesian Tracking, IEEE Transactions on Signal Processing, 50, 174-188.
2. Banga, J.R., (2008) Optimization in Computational Systems Biology, BMC Systems Biology, 2:47.
3. Bullinger, E., Fey, D., Farina, M. and Findeisen, R., (2008) Identifikation Biochemischer Reaktionsnetzwerke: ein Beobachterbasierter Ansatz, Automatisierungstechnik, 56(5), 269-279.
4. Doucet, A., (1998) On Sequential Monte Carlo Methods for Bayesian Filtering, Technical Report, Department of Engineering, University of Cambridge, UK.
5. Doucet, A. and Tadiic, V., (2003) Parameter Estimation in General State-Space Models Using Particle Methods, Annals of the Institute of Statistical Mathematics, 55(2), 409-422.
6. Farina, M., Findeisen, R., Bullinger, E., Bittanti, S., Allgower, F. and Wellstead, P., (2006) Results Towards Identifiability Properties of Biochemical Reaction Networks, Proc. of the IEEE Conference on Decision and Control, San Diego CA, USA, 2104-2109.
7. Fey, D. and Bullinger, E., (2007) Parameter Estimation in Regulatory Networks of Biochemical Reactions, Proc. of the International Conference on Systems Biology, Long Beach CA, USA.
8. Gilks, W.R., Richardson, S. and Spiegelhalter, D.J. (eds), (1986) Markov Chain Monte Carlo in Practice, Chapman and Hall, London.
9. Golightly, A. and Wilkinson, D.J., (2008) Bayesian Inference for Nonlinear Multivariate Diffusion Models Observed with Error, Computational Statistics and Data Analysis, 52(3), 1674-1693.
10. Goodwin, B.C., (1965) Oscillatory Behavior in Enzymatic Control Processes, Advances in Enzyme Regulation, 3, 425-438.
11. King, O.D. and Forsyth, D.A., (2000) How Does CONDENSATION Behave with a Finite Number of Samples?, Proc. of the European Conference on Computer Vision, Dublin, Ireland, 695-709.
12. Kitano, H., (2002) Systems Biology: A Brief Overview, Science, 295, 1662-1664.
13. Liu, J.S. and Cheng, R., (1998) Sequential Monte Carlo for Dynamic Systems, Journal of the American Statistical Association, 93, 1032-1044.
14. Moles, C.G., Mendes, P. and Banga, J.R., (2003) Parameter Estimation in Biochemical Pathways: A Comparison of Global Optimization Methods, Genome Research, 13, 2467-2474.
15. Shibata, T. and Ueda, M., (2008) Noise Generation, Amplification and Propagation in Chemotactic Signaling Systems of Living Cells, Biosystems, 93, 126-132.
16. Tseng, G.C., (2007) Penalized and Weighted KMeans for Clustering with Scattered Objects and Prior Information in High-Throughput Biological Data, Bioinformatics, 23(17), 2247-2255.
17. Wilkinson, D.J., (2007) Bayesian Methods in Bioinformatics and Computational Systems Biology, Bioinformatics, 8, 109-116.