Goutsias's model

Goutsias’s model [1] is widely used for evaluation of numerical and simulation based techniques. The model can be downloaded here. The reactions can be seen below. The rates are given in 1/s.

Responsive image

A pruned abstraction of the system can be seen below. The state vector is [M+D, RNA, DNA, DNA.D, DNA.2D].

Responsive image

Please refer to the theory paper for more details.

Sources

[1] Goutsias, J.: Quasiequilibrium approximation of fast reaction kinetics in stochasticbiochemical systems. The Journal of chemical physics 122(18), 184102 (2005)