Difference between revisions of "Data availability for the manuscript"

Figure 1. The workspace of the model project in web-version of the BioUML platform. Two rectangles with red borders indicate the Tree area of the workspace and the corresponding place of the model project, respectively.

Figure 2.1. An integrated modular model linking metabolism, Ca²⁺-dependent signaling transduction and regulation of gene expression in human skeletal muscle (To consider the model in more details click on the figure).

Figure 2.2. A general SBGN diagram of the modular model describing metabolism in fibers I type taking into account metabolic processes in the cytoplasm, in the mitochondrion and transport reactions between two compartments (To consider the diagram in more details click on the figure).

Figure 2.3. SBGN diagram of the cytosol compartment in fibers I type representing all metabolic reactions and corresponding math equations in the module.

Figure 3.1. A Menu Tab with initial values of the model variables is highlighted by a rectangle with a red border. (To consider the model in more details click on the figure).

Figure 3.2. A Menu Tab with parameter values of the model is highlighted by a rectangle with a red border. (To consider the model in more details click on the figure).

Figure 4. To run the model employ Simulation tab.

Figure 5.1. Jupyter notebook provides reproducibility of results presented in the manuscript. The notebook can be started on the BioUML server - click on the corresponding ipynb file (highlighted by a rectangle with a red border).

Figure 5.2. Jupyter notebook provides reproducibility of results presented in the manuscript. The notebook can be started via GitLab using Binder web-service - click on the corresponding launch icon (highlighted by a rectangle with a red border).

Figure 5.3. Binder allows a user to launch the Notebook in an executable environment.