Resources

Welcome to the Reaction Networks resource page. Below, we have curated papers, texts, software, references, and websites which we hope will be of use to you in your journey in the theory and application of reaction networks, whether a newcomer or seasoned veteran. 

This page is still under construction. The list provided below is not meant to be exhaustive. 

Software

• CoNtRol: Website interface for analysis of Chemical Reaction Networks (creator: Casian Pantea)

• CRNT Toolbox: Software for analysis of Chemical Reaction Networks (creator: Martin Feinberg)

• CRNPY: Python package for analysis of Chemical Reaction Networks (creator: Elisa Tonello)

• CRNT4SBML: Python package for analysis of Chemical Reaction Networks (creators: Brandon C Reyes , Irene Otero-Muras , Michael T Shuen , Alexandre M Tartakovsky , Vladislav A Petyuk)

Websites

• Reaction Network Wiki: Wiki for Chemical Reaction Networks (Last updated 2019)

• Mathematics of Complex Chemical Systems: Martin Feinberg Group Website on Chemical Reaction Network Theory

Selected Texts

• P. Érdi and J. Tóth, Mathematical Models of Chemical Reactions: Theory and Applications of Deterministic and Stochastic Models, Princeton University Press, Princeton, 1989. (Amazon)

• D. F. Anderson and T. G. Kurtz, Stochastic Analysis of Biochemical Systems, Math. Biosci. Inst. Lect. Ser. 1.2, Springer, Cham, 2015. (Springer)

• D. J. Wilkinson, Stochastic Modelling for Systems Biology, 3rd Ed., Chapman & Hall/CRC Press, Boca Raton, 2018. (Amazon)

• M. Feinberg, Foundations of Chemical Reaction Network Theory, Applied Mathematical Sciences, vol. 202, Springer, Cham, 2019. (Amazon)

Classical Papers

• F. Horn and R. Jackson, General mass action kinetics, Arch. Ration. Mech. Anal. 47 (1972), 81–116.

• F. Horn, Necessary and sufficient conditions for complex balancing in chemical kinetics, Arch. Ration. Mech. Anal. 49 (1972), 172–186.

• M. Feinberg, Complex balancing in general kinetic systems, Arch. Ration. Mech. Anal. 49 (1972), 187–194.

• T. Kurtz, The Relationship between Stochastic and Deterministic Models for Chemical Reactions. J. Chem. Phys. 57. (1972) 2976 -- 2978.

Lecture Notes

• M. Feinberg, Lectures on Chemical Reaction Networks, written version of lectures given at the Mathematics Research Center, University of Wisconsin, Madison, WI, 1979. (Link)

• J. Gunawardena, Chemical Reaction Network Theory for In-Silico Biologists, Bauer Center for Genomics Research, Harvard University (2003).  (Link)