- Author:
- nima <nafs080@aucklanduni.ac.nz>
- Date:
- 2021-10-11 12:43:20+13:00
- Desc:
- one cellml code for all the channels in "Channels" folder
- Permanent Source URI:
- https://models.cellml.org/workspace/702/rawfile/1ef5f2000b14c8d68ea6936f2c5503235e08d2df/Fig4.rst
About this model
====================
:Original publication: `Colleen E. Clancy, Eleonora Grandi, 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
.. _`Colleen E. Clancy, Eleonora Grandi, et al (2019)`: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6767694/
Figure 04
=============
Calcium current model optimization
=========================================
Steady‐state inactivation and activation iPSC‐CM experimental data, as well as optimized dataset‐specific models for \
different dataset (Fig. 4 A). Time constants were extracted from current recordings by Ma et al. (2011) \
(same as sodium current). The activation and inactivation time constant data used for model optimization, and the resulting \
models, are shown in Fig. 4 C and D.
`act.cellml`_ and `inact.cellml`_ are the main Cellml files which show the probability of \
sodium channel being open and \
close respectively. Their associated Sedml files contain all the simulation settings. \
All the Cellml files and Sedml files need to be download in a same folder \
as well as python script (`fig4-new.py`_). In the python script, required Sedml files are loaded \
into the script and by running the code following figure is reproduced.
.. figure:: Fig4/fig4.png
:width: 85%
:align: center
:alt: Schematics of the model
A, L-type calcium current (ICaL) steady-state inactivation and activation \
curves with dataset-specific model optimized to experimental data. The L-type calcium \
model used in the baseline cellular model is shown \
in black. Coloured symbols represent experimental iPSC-CM data from `Ma et al. (2011)`_ \,`Veerman et al. (2016)`_ \
and `Es-Salah-Lamoureux et al. (2016)`_. \
C, time constants of ICaL activation gate. D, time \
constants of ICaL inactivation gate.
.. _`Herron et al. 2016`: https://pubmed.ncbi.nlm.nih.gov/27069088/
.. _`Ma et al. (2011)`: https://pubmed.ncbi.nlm.nih.gov/21890694/
.. _`Li et al. 2017`: https://pubmed.ncbi.nlm.nih.gov/28615142/
.. _`act.cellml`: https://models.physiomeproject.org/e/72a/Fig4/act.cellml/view/
.. _`inact.cellml`: https://models.physiomeproject.org/e/72a/Fig4/inact.cellml/view/
.. _`Veerman et al. (2016)`: https://www.nature.com/articles/srep30967/
.. _Es-Salah-Lamoureux et al. (2016): https://pubmed.ncbi.nlm.nih.gov/27590098/
.. _`fig4-new.py`: https://models.physiomeproject.org/e/72a/Fig4/fig4-new.py/view/
