Sensitivity analysis examines how perturbations to the processes in the model affect the output.
Control coefficients for c-fos mRNA duration and integrated pc-Fos are shown by bars (blue, EGF; red, HRG). Numbers above bars indicate the reaction indices.
The single parameter sensitivity of each reaction is defined by
si(q(v),vi) = ∂ ln(q(v)) / ∂ ln(vi) = ∂q(v) / ∂vi · vi / q(v)
where vi is the ith reaction rate, v is reaction vector v = (v1, v2, ...) and q(v) is a target function, e.g., time-integrated response, duration. Sensitivity coefficients were calculated using finite difference approximations with 1% changes in the reaction rates.
- Python3+
- numpy
- scipy
- matplotlib
- jupyter
from sensitivity_analysis import analyze
analyze()
$ git clone https://github.com/okadalabipr/sensitivity_analysis.git
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Nakakuki, T. et al. Ligand-specific c-Fos expression emerges from the spatiotemporal control of ErbB network dynamics. Cell 141, 884–896 (2010). https://doi.org/10.1016/j.cell.2010.03.054
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Kholodenko, B. N., Demin, O. V. & Westerhoff, H. V. Control Analysis of Periodic Phenomena in Biological Systems. J. Phys. Chem. B 101, 2070–2081 (1997). https://doi.org/10.1021/jp962336u
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Kholodenko, B. N., Hoek, J. B., Westerhoff, H. V. & Brown, G. C. Quantification of information transfer via cellular signal transduction pathways. FEBS Lett. 414, 430–434 (1997). https://doi.org/10.1016/S0014-5793(97)01018-1