Data processing: structural design – modeling – simulation – and em – Simulating nonelectrical device or system – Biological or biochemical
Reexamination Certificate
2011-01-18
2011-01-18
Zhou, Shubo (Joe) (Department: 1631)
Data processing: structural design, modeling, simulation, and em
Simulating nonelectrical device or system
Biological or biochemical
C702S019000, C702S020000
Reexamination Certificate
active
07873502
ABSTRACT:
A system for modeling, simulating and analyzing chemical and biochemical reactions includes a modeling environment for constructing a model of a chemical or biochemical system comprising a plurality of chemical reactions. The system also includes a simulation engine accepting as input the constructed model of the chemical or biochemical system and generating as output an expected result. Each time a chemical reaction executes during a simulation of the chemical or biochemical system, the simulation engine stores the reaction time and an identifier for the reaction that executes at that reaction time to produce a time-ordered history list. The history list can be replayed by simulating the reactions as the reactions occur in the history list to produce the same state sequence as the original simulation.
REFERENCES:
patent: 6332147 (2001-12-01), Moran et al.
patent: 6385765 (2002-05-01), Cleaveland et al.
patent: WO-2004/081862 (2004-09-01), None
Gibson, Michael A. et al, “Efficient Exact Stochastic Simulation of Chemical Systems with Many Species and Many Channels,”J. Phys. Chem. A, vol. 104:1876-1889 (2000).
Gillespie, Daniel T., “A General Method for Numerically Simulating the Stochastic Time Evolution of Coupled Chemical Reactions,”Journal of Computational Physics, vol. 22:403-434 (1976).
Gillespie, Daniel T., “Exact Stochastic Simulation of Coupled Chemical Reactions,”The Journal of Physical Chemistry, vol. 81(25):2340-2361 (1977).
Kierzek, Andrzej M., “STOCKS: STOChastic Kinetic Simulations of biochemical systems with Gillespie algorithm,”Bioinformatics, vol. 18(3):470-481 (2002).
International Search Report for Application No. PCT/US2005/044192, dated May 11, 2006.
Hicklin Joseph F.
Paxson Ricardo E.
Canning Kevin J.
Nelson Mullins Riley & Scarborough LLP
The MathWorks, Inc.
Zhou Shubo (Joe)
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