- Author:
- Shelley Fong <s.fong@auckland.ac.nz>
- Date:
- 2021-11-17 16:13:54+13:00
- Desc:
- fixing rst line spacing
- Permanent Source URI:
- https://models.cellml.org/workspace/6ba/rawfile/38d463d55136bf66b1f15471fc79cb2b5fc8c867/exposure/exposure_frontpage.rst
About this model
====================
This is a bond graph model of beta-1 adrenergic receptor ( :math:`{\beta}` 1AR) metabolism in the cardiac cell.
**INPUTS:**
- Ligand (L) stimulus e.g. isoproterenol
**OUTPUTS:**
- Change in molar amount of :math:`{\beta}` 1AR (R),
**REACTIONS:**
- Phosphorylation of :math:`{\beta}` 1AR by :math:`{\beta}` ARK
- Phosphorylation of :math:`{\beta}` 1AR by PKACI
Model status
=============
The current CellML implementation runs in OpenCOR.
Model overview
===================
This model is made by from an existing kinetic model, and translating the mathematics into the bond-graph formalism.
The creation of LR and LRG species are not included in this module. See the `module for L, R, and G binding for these. <https://models.physiomeproject.org/workspace/6f7>`_
.. figure:: exposure/kinetic_reactions.png
:width: 100%
:align: center
:alt: Original kinetic formulations
Original kinetic formulations.
|
.. figure:: exposure/BG_BARK_reaction.png
:width: 75%
:align: center
:alt: BG BARK reaction
Bond graph formulation of the reaction involving the :math:`{\beta}` ARK enzyme, in the phosphorylation of :math:`{\beta}` 1AR.
|
.. figure:: exposure/BG_PKACI_reaction.png
:width: 75%
:align: center
:alt: BG PKACI reaction
Bond graph formulation of the reaction involving the PKACI enzyme, in the phosphorylation of :math:`{\beta}` 1AR at another site to the :math:`{\beta}` ARK enzyme.
|
Parameter finding
~~~~~~~~~~~~~~~~~
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/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>`_
