- Author:
- Shelley Fong <sfon036@UoA.auckland.ac.nz>
- Date:
- 2025-04-15 11:13:46+12:00
- Desc:
- Adding expo files and rdf
- Permanent Source URI:
- https://staging.physiomeproject.org/workspace/6f7/rawfile/ce94ad023ee2d8360e16a68feafcb344fe8a9717/exposure/exposure_frontpage.rst
About this model
====================
This is a bond-graph model of a ligand binding a receptor on the cell surface and forming an activated complex. The corresponding G protein is also involved.
**INPUTS:**
- Ligand (L) stimulus e.g. isoproterenol
**OUTPUTS:**
- Amount of activated G protein (G)
**REACTIONS:**
- R\ :sub:`C`, R\ :sub:`L`, R\ :sub:`R`
Model status
=============
The current CellML implementation runs in OpenCOR.
Model overview
===================
This model is made by from an existing kinetic model, where the mathematics are translated into the bond-graph formalism. This describes the model in energetic terms and forces adherence to the laws of thermodynamics.
.. figure:: exposure/BG_diagram.png
:width: 100%
:align: center
:alt: BG_diagram
|
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.
Parameter finding
~~~~~~~~~~~~~~~~~
A description of the process to find bond-graph parameters is shown in the folder `parameter_finder <parameter_finder>`_, which relies on the:
1. stoichiometry of system
2. kinetic constants for forward/reverse reactions
- If not already, all reactions are made reversible by assigning a small value to the reverse direction.
3. `linear algebra script <https://models.physiomeproject.org/workspace/6ba/file/c32be022513dc4b620d74803a6ace6ca2d817e11/parameter_finder/find_BG_parameters.py>`_.
Here, this solve process is performed in Python.
Original kinetic model
======================
Saucerman et al: `Modeling beta-adrenergic control of cardiac myocyte contractility in silico. <https://models.physiomeproject.org/exposure/9766d9bd0325c31e47a31b291e26ccad>`_
