BG_RTK

About this model

This is a bond-graph model of the metabolism of generic receptor tyrosine kinase (RTK) in the mammalian cell.

INPUTS:

Ligand (L) stimulus

OUTPUTS:

Change in molar amount of phosphorylated RTK K₂P_n

REACTIONS:

Re₁: the binding of L to one RTK (K₁)

Re₂: formation of temporary complex of two RTK molecules which have dimerized, with ligand present (LK₁ K₂).

Re₃: autophosphorylation of second RTK in the dimer and simultaneous dissociation of dimer.

Model status

The current CellML implementation runs in OpenCOR.

Model overview

The following model of RTK action is based on what is widely known in literature.

Fig. 1. Bond-graph formulation of the generic RTK network. Because this model is generic, n would change depending on the chosen reaction.

For the above bond-graphs, a '0' node refers to a junction where all chemical potentials are the same. A '1' node refers to all fluxes being the same going in and out of the junction.

List of chemical species
Abbreviation	Name
K	Receptor tyrosine kinase (RTK)
L	Ligand
P_i	Phosphate

Parameter finding

A description of the process to find bond-graph parameters is shown in the folder parameter_finder, which relies on the:

stoichiometry of system
kinetic constants for forward/reverse reactions

If not already, all reactions are made reversible by assigning a small value to the reverse direction.

linear algebra script.

Here, this solve process is performed in Python.