- Author:
- Shelley Fong <sfon036@UoA.auckland.ac.nz>
- Date:
- 2022-06-10 16:02:13+12:00
- Desc:
- With updated CaTRPN calculation and Cai stim added
- Permanent Source URI:
- https://models.cellml.org/workspace/7a8/rawfile/fc2d852949f3155b194f87a5671aa6e0c016d19d/exposure/exposure_frontpage.rst
About this Functional Cell Unit
===============================
This model is a Functional Cell Unit of calcium handling within a cardiac myocyte, leading excitation-contraction coupling.
This is a composite module, composed of several individual modules, and merged together in a modular fashion.
**INPUTS:**
- Stimulus current or action potential.
**OUTPUTS:**
- Tension generated by sarcomere.
Model status
=============
The current CellML implementation compiles 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: 70%
: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/7a8/rawfile/4ae281c45fbbd7c0a2be6c86eb946a84c35f0f70/parameter_finder/find_BG_parameters_composite.py>`_, which outputs the bond-graph parameters K and :math:`{\kappa}`.
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 listed below:
.. csv-table:: Model components, including the source of kinetic origin
:header: "Component", "Abbreviation", "Source"
:widths: 25, 15, 25
"`Calcium leak <https://models.physiomeproject.org/workspace/835>`_", "Ca_leak", "`Luo and Rudy (1994) <https://models.physiomeproject.org/e/81>`_"
"`Crossbridge Troponin-C <https://models.physiomeproject.org/e/800>`_", "Crossbridge_TRPN", "`Niederer et al. (2006) <https://models.physiomeproject.org/exposure/97fb1de5199b1a74c89281db97aecc13>`_ , `Land et. al. (2017) <http://dx.doi.org/10.1016/j.yjmcc.2017.03.008>`_"
"`Diadic calcium diffusion <https://models.physiomeproject.org/workspace/88c>`_", "DiadCaDiffusion", "`Greenstein and Winslow (2002) <https://doi.org/10.1016%2FS0006-3495(02)75301-0>`_"
"`L-type calcium channel <https://models.physiomeproject.org/workspace/6d7>`_", "LCC", "`Luo and Rudy (1994) <https://models.physiomeproject.org/e/81>`_"
"`Sodium-calcium exchanger <https://models.physiomeproject.org/workspace/828>`_", "NCX", "`Luo and Rudy (1994) <https://models.physiomeproject.org/e/81>`_"
"`Sarcolemmal calcium pump <https://models.physiomeproject.org/workspace/833>`_", "pCa", "`Clancy and Rudy (2001) <https://models.physiomeproject.org/e/514>`_"
"`Phospholamban regulation <https://models.physiomeproject.org/workspace/6d1>`_", "PLB", "`Saucerman et al. (2003) <https://models.physiomeproject.org/exposure/9766d9bd0325c31e47a31b291e26ccad>`_"
"`Ryanodine receptor <https://models.physiomeproject.org/workspace/6e3>`_", "RyR", "`Stern et al. (1999) <https://models.physiomeproject.org/exposure/b060fdbcfae8c7d85e595c24d36ab11b>`_"
"`Sarcoplasmic/endoplasmic Ca2+ ATPase <https://models.physiomeproject.org/workspace/7a5>`_", "SERCA", "`Tran et al. (2009) <https://models.physiomeproject.org/exposure/815f3cb51960e9c9855e66996c1d1a4c>`_"
Each of these blocks is itself a CellML model, complete with bond-graph parameters appropriate for the isolated system.
