- Author:
- David Nickerson <david.nickerson@gmail.com>
- Date:
- 2021-11-25 11:13:34+13:00
- Desc:
- making internal links in overview relative instead of absolute
- Permanent Source URI:
- https://models.cellml.org/workspace/702/rawfile/430939c5c1b887fcf0d899b0dd11370b77bf495f/Fig9.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 09
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Inward rectifier potassium current (:math:`I_{K1}`) model optimization
****************************************************************************
The slow delayed rectifier potassium current was modeled here.
experimental iPSC-CM data collected from `Ma et al. (2011)`_ , Kurokawa Lab (`Li et al. (2017)`_),
and the Jalife Lab (`Herron et al. (2016)`_) in order to optimize data specific model.
`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 download in a same folder,
as well as python script (`fig9-new.py`_) which can reproduce the
I-V curve for :math:`I_{K1}`. In the python script, required SED-ML file is loaded
into the script and by running the code following figure is reproduced. `fig9-new.py`_ is used to
generate the simulation and reproduces the graph shown in Figure 9 in the original study.
In order to reproduce Figure 9, once all the files are downloaded to the same folder,
execute the following script from the command line (command prompt):
cd [PathToThisFile]
[PathToOpenCOR]/pythonshell fig9-new.py
.. figure:: Experiments/Figure09.png
:width: 85%
:align: center
:alt: I-V curve with dataset-specific model fits. Different colour represent experimental
iPSC-CM data from multiple laboratories
.. _`Ma et al. (2011)`: https://pubmed.ncbi.nlm.nih.gov/21890694/
.. _`Li et al. (2017)`: https://pubmed.ncbi.nlm.nih.gov/28615142/
.. _`Herron et al. (2016)`: https://www.ahajournals.org/doi/full/10.1161/CIRCEP.113.003638
.. _`Channels.cellml`: https://models.physiomeproject.org/workspace/702/rawfile/2a5d36a02c5e82d6a97c237aa20a7f15d2624862/Components/Channels.cellml
.. _`fig9-new.py`: https://models.physiomeproject.org/workspace/702/rawfile/2a5d36a02c5e82d6a97c237aa20a7f15d2624862/Experiments/fig9-new.py
