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Berkeley Madonna is a mathematical modelling software package, developed at the University of California at Berkeley by Robert Macey and George Oster. It numerically solves ordinary differential equations and difference equations, originally developed to execute STELLA programs.
Berkeley Madonna is arguably the fastest differential equation solver, originally developed for modeling and visualization of chemical reactions. Its strength lies in a relatively simple syntax to define differential equations coupled with a simple yet powerful user interface. In particular, Berkeley Madonna provides the facility of putting parameters onto a slider that can in turn be moved by a user to change the value. Such visualizations enable quick assessments of whether or not a particular model class is suitable to describe the data to be analyzed and modeled, and, later, communicating models easily to other disciplines such as medical decision makers.
It has become a standard in the development and communication of pharmacometric models describing drug concentration and its effects in drug development , modeling of physiological processes  and is also used in epidemiology.
There are two versions of Berkeley Madonna: a free version with slightly limited functionality and a licensed version that is registered to individuals.
- Users' Manual http://www.berkeleymadonna.com/BM%20User%27s%20Guide%208.0.2.pdf
- Krause, A; Lowe, PJ (2014-05-28). "Visualization and Communication of Pharmacometric Models With Berkeley Madonna". CPT Pharmacometrics Syst. Pharmacol. 3: 113. Template:Citation error. http://onlinelibrary.wiley.com/doi/10.1038/psp.2014.13/abstract.
- Zhong, H.; Wade, S.M.; Woolf, P.J.; Linderman, J.J.; Traynor, J.R.; Neubig, R.R. (2003). "REGULATOR OF G PROTEIN SIGNALING (RGS) PROTEIN-MEDIATED KINETIC SCAFFOLDING". Journal of Biological Chemistry 278 (9): 7278–7284.
- Vinnycky, Emilia; White, Richard (2010-05-13). An introduction to infectious disease modelling. Oxford University Press. ISBN 978-0-19-856576-5.