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Editor: david
Comment: Starting some Kinetic documentation, based on Delhi pratical materials.
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The general form of the description of a kinetic model has been covered in the pages on the [[../../../SpyMDL|ScrumPy Model Description Language]]. Consider the following two enzyme system as an example:
 {{{
# Two reactions with reversible Michaelis-Menten kinetics

R1:
    x_A <> B
    
    Vmax1/K1A * (x_A - B/Keq1)/ (
 1 + x_A/K1A + B/K1B
     )

R2:
    B <> x_C
    Vmax2/K2B * (B - x_C/Keq2)/ (
 1 + B/K2B + x_C/K2C
    )

x_A = 1
x_C = 1

Vmax1 = 10
K1A = 1
K1B = 1
Keq1 = 2

Vmax2 = 10
K2B = 1
K2C = 1
Keq2 = 2

B=0.4
}}}
Note that this file contains two reaction definitions with their kinetic equations, followed by initial assignments of the parameters and the variable (B).

If this model had already been saved as a spy file, then it can be loaded into ScrumPy as follows:

Kinetic Modelling

The general form of the description of a kinetic model has been covered in the pages on the ScrumPy Model Description Language. Consider the following two enzyme system as an example: 

  • # Two reactions with reversible Michaelis-Menten kinetics

R1:
    x_A <> B
    
    Vmax1/K1A * (x_A - B/Keq1)/ (
        1 + x_A/K1A + B/K1B
            )

R2:
    B <> x_C
    Vmax2/K2B * (B - x_C/Keq2)/ (
        1 + B/K2B + x_C/K2C
    )

x_A = 1
x_C = 1

Vmax1 = 10
K1A = 1
K1B = 1
Keq1 = 2

Vmax2 = 10
K2B = 1
K2C = 1
Keq2 = 2

B=0.4

Note that this file contains two reaction definitions with their kinetic equations, followed by initial assignments of the parameters and the variable (B).

If this model had already been saved as a spy file, then it can be loaded into ScrumPy as follows:

None: ScrumPy/Doc/KinMod (last edited 2015-09-27 12:29:44 by david)