- Author:
- Shelley Fong <s.fong@auckland.ac.nz>
- Date:
- 2021-11-10 14:40:25+13:00
- Desc:
- Fixing exposure files
- Permanent Source URI:
- https://staging.physiomeproject.org/workspace/705/rawfile/2fe62170795cead474fd15120998d64bb1d6e493/exposure/exposure_frontpage.rst
About this model
====================
This is a Functional Cell Unit for adenylyl cyclase metabolism in the cardiac cell.
This is a composite module, composed of several individual modules, and merged together in a modular fashion.
Model status
=============
The current CellML implementation runs in OpenCOR.
Model overview
===================
All components are presented in `bond-graph` form.
Components are made by converting an existing kinetic model and translating into bond-graph form.
.. figure:: exposure/FCU_picture.png
:width: 25%
:align: center
:alt: Components of the model
Components of the model.
A description of the process to find bond-graph parameter 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/705/file/e2e0d90970a2ee0be95efad22e7c7ab266bf8f84/parameter_finder/find_BG_parameters_composite.py>`_.
Here, this solve process is performed in Python.
Modular description
===================
Components
----------
CellML divides the mathematical model into distinct components, which are able to be re-used in other composite models.
These CellML components are:
- `beta-1 adrenergic receptor <https://models.physiomeproject.org/workspace/6f7>`_ ( :math:`{\beta}` 1AR)
- `Gs Protein <https://models.physiomeproject.org/workspace/6f8>`_
- `muscarinic receptor <https://models.physiomeproject.org/workspace/707>`_ (M2)
- `Gi Protein <https://models.physiomeproject.org/workspace/6f9>`_
- `cyclic AMP <https://models.physiomeproject.org/workspace/674>`_ (cAMP)
.. csv-table:: Origin of kinetic model components
:header: "Source", "Components"
:widths: 15, 30
"`Saucerman et al. <https://models.physiomeproject.org/exposure/9766d9bd0325c31e47a31b291e26ccad>`_", ":math:`{\beta}` 1AR, Gs Protein, cAMP"
"`Iancu et al. <https://models.physiomeproject.org/exposure/f67b68f901fc3986fcea0dcfceb503f9>`_", "M2, Gs Protein"
Each of these blocks is itself a CellML model, complete with bond-graph parameters appropriate for the isolated system.
