Modeling Projects

General modeling ideas and scalings

- Probabilistic vs deterministic modeling

Each of the articles below compares stocastic and continuous modeling approaches of a specific biological phenomenon.

• Stochastic kinetics of reproduction of virions inside a cell, by V.P. Zhdanov,
  BioSystems 77, 143-150 (2004).
• Deterministic modelling and stochastic simulation of biochemical pathways using MATLAB, by M. Ullah, H. Schmidt, K.-H. Cho and O. Wolkenhauer,
  IEE Proc.-Syst. Biol., 153, 53-60 (2006).

- Allometric models

The first paper describes how tumor growth may be used to test allometric theories, the second investigates the effect of natural selection on scaling relationships, and the third discusses how experimental data could be used to discriminate between two different allometric models. The last paper is a review of allometric scaling laws.

• Growth model for multicellular tumor spheroids, by P.P. Delsanto, C. Guiot, P.G. Gegiorgis, C.A. Condat, Y. Mansury and T.S. Deisboeck,
  Appl. Phys. Lett. 85, 4225-4227 (2004).
• Natural Selection and Developmental Constraints in the Evolution of Allometries, by W.A. Frankino, B.J. Zwaan, D.L. Stern, and P.M. Brakefield,
  Science 307, 718-720 (2005).
• Body sizes of hosts and parasitoids in individual feeding relationships, by J.E. Cohen, T. Jonsson, C.B. Müller, H. C. J. Godfray, and V. M. Savage,
  Proc. Natl. Acad. Sci. 102, 684-689 (2005).
• Allometric scaling laws of metabolism, by J.K. Leal da Silva, G.J.M. Garcia, and L.A. Barbosa,
  Physics of Life Reviews 3, 229-261 (2006).