Template:ETH Modeling Formulas

From 2006.igem.org

To get our models into a form which can be simulated, we needed to transform the wiring diagrams into a set of ODE's (ordinary differential equations), which in our case will be non-linear.

For every concerned species X, we write

d[X]/dt = production - consumption

For enzymatic transformation of substrate X into product P (catalyzed by enzyme E), we write

       k+1      k2
X + E <==> X⋅E --> P + E
       k-1

d[X]/dt = -k+1[X][E] + k-1[X⋅E]           - dX[X]
d[E]/dt = -k+1[X][E] + k-1[X⋅E] + k2[X⋅E] - dE[E]
d[P]/dt =                      + k2[X⋅E] - dP[P]