swMATH ID: 10438
Software Authors: Andrzej M. Kierzek
Description: STOCKS: STOChastic kinetic simulations of biochemical systems with Gillespie algorithm. STOCKS, software for the stochastic kinetic simulation of biochemical processes is presented. The program uses a rigorously derived Gillespie algorithm that has been shown to be applicable to the study of prokaryotic gene expression. Features dedicated to the study of cellular processes are implemented, such as the possibility to study a process in the range of several cell generations with the application of a simple cell division model. Taking expression of Escherichia coli beta-galactosidase as an example, it is shown that the program is able to simulate systems composed of reactions varying in several orders of magnitude by means of reaction rates and the numbers of molecules involved.
Homepage: http://bioinformatics.oxfordjournals.org/content/18/3/470
Related Software: PROPhESY; PARAM; MRMC; Bio-PEPA; PRISM; SPPARKS; Virtual Cell; JigCell; YSMP; MEG; MetaModel; ODEPACK; E-CELL; GEPASI; SCAMP; IntelliGEN; KINSOLVER; J3DV; Dizzy; Chronux
Cited in: 12 Publications

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