Solving chemical master equations by an adaptive wavelet method

AIP Conference Proceedings

Volumn 1048, Issue , 2008, Pages 290-293

  Jahnke, Tobias ^a   Galan, Steffen ^a  

^a UNIVERSITY OF KARLSRUHE   (Germany)

Author keywords

Adaptive galerkin method; Chemical master equation; Haar wavelets; Rothe method; Stochastic reaction kinetics

Indexed keywords

EID: 54049098482     PISSN: 0094243X     EISSN: 15517616     Source Type: Conference Proceeding    
DOI: 10.1063/1.2990915     Document Type: Conference Paper

References (15)

1. D. T. Gillespie, J. Comput. Phys. 22, 403-434 (1976).
2. D. T. Gillespie, Physica A 188, 404-425 (1992).
3. C.W. Gardiner, Handbook of Stochastic Methods, Springer, Berlin, 1985, 2nd enlarged edition edn.
4. B. Munsky, and M. Khammash, J. Chemical Physics (2006).
5. D. T. Gillespie, J. Phys. Chem. 81, 2340-2361 (1977).
6. K. Burrage, M. Hegland, S. MacNamara, and R. B. Sidje, "A Krylov-based Finite State Projection algorithm for solving the chemical master equation arising in the discrete modelling of biological systems," in Markov Anniversary Meeting: An international conference to celebrate the 150th anniversary of the birth of A.A. Markov, edited by A.N.Langville, and W.J.Stewart, Boson Books, 2006, pp. 21 - 38.
7. S. MacNamara, K. Burrage, and R. B. Sidje, Multiscale modeling of chemical kinetics via the master equation (2007), unpublished.
8. M. Hegland, C. Burden, L. Santoso, S. MacNamara, and H. Booth, Journal of Computational and Applied Mathematics 205, 708-724 (2007).
9. S. Engblom, A discrete spectral method for the chemical master equation, Tech. Rep. Technical Report 2006-036, Uppsala University (2006).
10. A. Hellander, and P. Lötstedt, J. Comput. Phys. 227, 100-122 (2007).
11. S. Peles, B. Munsky, and M. Khammash, Journal of Chemical Physics 125, 204104 (2006).
12. T. Jahnke, and W. Huisinga, Journal of Mathematical Biology 54, 1-26 (2007).
13. T. Jahnke, and W. Huisinga, Bulletin of Mathematical Biology (2008).
14. P. Deuflhard, W. Huisinga, T. Jahnke, and M. Wulkow, Adaptive discrete Galerkin methods applied to the chemical master equation (2007), accepted for publication in SISC.
15. W. Dahmen, "Multiscale and wavelet methods for operator equations," in Multiscale problems and methods in numerical simulations. Lectures given at the C.I.M.E. summer school, Martina Franca, Italy, September 9-15, 2001., edited by C. Canuto, Lect. Notes Math. 1825, Springer., Berlin, 2003, pp. 31-96.