Berkeley Madonna Explained

Berkeley Madonna
Author:Robert Macey and George Oster
Latest Release Version:Version 10.2.6
Latest Release Date:2021-02-28
Programming Language:C, Java
Operating System:Windows, MacOS
Platform:PC, Macintosh
Genre:Mathematical software
License:Proprietary

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.[1] [2]

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.

Uses

It has become a standard in the development and communication of pharmacometric models describing drug concentration and its effects in drug development[3] [4] as well as modeling of physiological processes.[5] A user community exists in the form of a LinkedIn user group[6] with more than 750 members (February 2023).

The use of system dynamics modeling has expanded into other areas such as system physics, epidemiology,[7] environmental health,[8] and population ecology.[9]

Versions

There are two versions of Berkeley Madonna: a free version with slightly limited functionality and a licensed version that is registered to individuals.

Further reading

Notes and References

  1. Macey, Robert; Oster. George; Zahnley, Tim (December 28, 2009). Berkeley Madonna User’s Guide University of California. Department of Molecular and Cellular Biology. Berkeley, California.
  2. Marcoline, Frank; Grabe, Michael; Nayak, Smita; Zahnley, Tim; Oster, George; Macey, Robert (February 28, 2021). Berkeley Madonna User’s Guide Version 10.2.6 Berkeley Madonna, Inc., Albany, CA 94706.
  3. Krause. A. Lowe. PJ. Visualization and Communication of Pharmacometric Models With Berkeley Madonna. CPT: Pharmacometrics & Systems Pharmacology. 2014-05-28. 3. 5. 113. 10.1038/psp.2014.13. 24872204. 4055786. pp. 1–20.
  4. Marcoline. F. Furth. J. Nayak. S. Grabe. M. Macey. R.I.. Berkeley Madonna Version 10–A simulation package for solving mathematical models. CPT: Pharmacometrics & Systems Pharmacology. 2021-10-15. 11. 3. 290–301. 10.1002/psp4.12757. 35064965. 8923725. pp. 290-301.
  5. Zhong. H.. A Spatial Focusing Model for G Protein Signals. Wade. S.M.. Woolf. P.J.. Linderman. J.J.. Traynor. J.R.. Neubig. R.R.. Journal of Biological Chemistry. 2003. 278. 9. 7278–7284. 10.1074/jbc.m208819200. 12446706. free.
  6. Web site: LinkedIn group Berkeley Madonna. LinkedIn.com. February 8, 2023.
  7. Book: Vinnycky. Emilia. White. Richard. An introduction to infectious disease modelling. 2010-05-13. Oxford University Press. 978-0-19-856576-5.
  8. Book: Robson. MG. Toscano. WA. Risk Assessment for Environmental Health. 2007. John Wiley & Sons. 9780787988593.
  9. System dynamics modelling of the Endangered African penguin populations on Dyer and Robben islands, South Africa. Florian. Weller. Richard B.. Sherley. Lauren J.. Waller. Katrin. Ludynia. Deon. Geldenhuys. Lynne J.. Shannon. Astrid. Jarre. Ecological Modelling. 327. 2016. 44–56. 10.1016/j.ecolmodel.2016.01.011. 2016EcMod.327...44W .

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