fig6.py
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 |
Figure 06
Slow delayed rectifier potassium current (IKs) model optimization
The voltage dependent activation gating variables were modeled here. experimental iPSC‐CM data collected from Ma et al. (2011) and two other independent datasets from Ma et al. (2015) in order to optimize data specific model. Steady-state inactivation and activation iPSC-CM experimental data, with optimized dataset-specific models for different dataset (Fig. 6 A) Parameters in all models were parameterized using the activation time constants from Ma et al. (2011) (Fig. 6. B). and I-V curves for IKs (Fig. 6. C).
Current_Iks.cellml is the main CellML files which has all the formulation for slow delayed rectifier potassium current, Its associated Sedml file contains all the simulation settings.
All the CellML files and SED-ML files related to this channel need to be downloaded in a same folder (Current_Iks, gating_Iks, parameter_Iks, parameter, unit) as well as python script (fig6.py). In the python script, required Sedml file (Current_Iks.sedml) is loaded into the script and by running the code following figure is reproduced. fig6.py is used to generate the simulation and reproduces the graph shown in Figure 7 in the original study. In order to reproduce Figure 7, once all the files are downloaded to the same folder, execute the following script from the command line (command prompt):
cd [PathToThisFile]
[PathToOpenCOR]/pythonshell fig6.py
A, optimized steady-state activation with dataset-specific model fits. Different colour represent experimental iPSC-CM data from multiple laboratories. B, Time constant of IKs activation gate. C, I-V curves.