Using Python for Spatially Resolved Modeling with Simmune

  • Bastian R. Angermann
  • Martin Meier-SchellersheimEmail author
Part of the Methods in Molecular Biology book series (MIMB, volume 1945)


Mechanistic models are an important tool to gain insights about the quantitative behavior of cell-biological signal transduction networks. Here we show how Simmune can be used in conjunction with IPython to create repeatable, self-contained analyses of signal transduction processes in spatially inhomogeneous environments.

Key words

Mechanistic modeling GPCR signaling Gradient sensing IPython 



We would like to thank Anke Knauf and Nicolas W. Lounsbury from the Laboratory of Immune System Biology for critically reading the manuscript. This work was supported by the Intramural Research Program of the US National Institute of Allergy and Infectious Diseases of the National Institutes of Health.


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Copyright information

© Springer Science+Business Media, LLC, part of Springer Nature 2019

Authors and Affiliations

  • Bastian R. Angermann
    • 1
  • Martin Meier-Schellersheim
    • 1
    Email author
  1. 1.Computational Biology Section, Laboratory of Systems Biology, National Institute of Allergy and Infectious Diseases, National Institutes of HealthBethesdaUSA

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