- Author:
- Shelley Fong <sfon036@UoA.auckland.ac.nz>
- Date:
- 2024-09-27 14:26:17+12:00
- Desc:
- Updating captions
- Permanent Source URI:
- https://models.fieldml.org/workspace/702/rawfile/013a1f6b66817f0be90630420f0c7fd83618cd18/RST/Fig11_wholecell.rst
About this model
====================
:Original publication: `Kernik et al. (2019)`_:
"A computational model of induced pluripotent stem-cell derived cardiomyocytes
incorporating experimental variability from multiple data sources" J Physiol. 2019 Sep 1; 597(17): 4533-4564.
:DOI: https://dx.doi.org/10.1113%2FJP277724
.. _`Kernik et al. (2019)`: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6767694/
************
Figure 11
************
Action potential in the whole-cell model
****************************************************************************
The developed whole-cell model including all the channels and current was optimized to reproduce
the spontaneous beating of actional potential as a key feature of the immature iPSC-CM
phenotype, which is shown in figure 11.
`Channels.cellml`_ is the main CellML file which shows the I-V curves for different channels fitted to
different experimental data from multiple laboratories.
Its associated SED-ML file contains all the simulation settings.
All the CellML files and SED-ML files need to be downloaded in a same folder
as well as python scripts (`fig11_wholecell.py`_). In the `fig11_wholecell.py`_ python script,
required SED-ML file (Channels.sedml) is loaded into the script and by running the code all the required currents
are calculated, and the following figure is reproduced. `fig11_wholecell.py`_ is used to
generate the simulation and reproduces the graph shown in Figure 11 in the original study.
In order to reproduce Figure 11, save all the files to the same folder and execute the following script from the command line:
``$ cd [PathToThisFile]``
``$ [PathToOpenCOR]/pythonshell fig11_wholecell.py``
.. figure:: figures/Figure11_wholecell.png
:width: 85%
:align: center
Time course of the spontaneously beating APs in the whole-cell model
.. _`Channels.cellml`: https://models.physiomeproject.org/workspace/702/file/98f5f62a7e8d3e057f3d24027e38ed91a2a185ed/Channels.cellml
.. _`fig11_wholecell.py`: https://models.physiomeproject.org/workspace/702/file/98f5f62a7e8d3e057f3d24027e38ed91a2a185ed/fig11_wholecell.py
