Berkeley Madonna

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]}

Berkeley Madonna

Original author(s)	Robert Macey and George Oster
Stable release	Version 10.2.6 / 2021-02-28
Written in	C, Java
Operating system	Windows, MacOS
Platform	PC, Macintosh
Type	Mathematical software
License	Proprietary
Website	www.berkeleymadonna.com

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.

References

1. Macey, Robert; Oster. George; Zahnley, Tim (December 28, 2009). Berkeley Madonna User’s Guide Archived 2015-02-26 at the Wayback Machine 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 (2014-05-28). "Visualization and Communication of Pharmacometric Models With Berkeley Madonna". CPT: Pharmacometrics & Systems Pharmacology. 3 (5): 113. doi:10.1038/psp.2014.13. PMC 4055786. PMID 24872204. pp. 1–20.
4. Marcoline, F; Furth, J; Nayak, S; Grabe, M; Macey, R.I. (2021-10-15). "Berkeley Madonna Version 10–A simulation package for solving mathematical models". CPT: Pharmacometrics & Systems Pharmacology. 11 (3): 290–301. doi:10.1002/psp4.12757. PMC 8923725. PMID 35064965. pp. 290-301.
5. Zhong, H.; Wade, S.M.; Woolf, P.J.; Linderman, J.J.; Traynor, J.R.; Neubig, R.R. (2003). "A Spatial Focusing Model for G Protein Signals". Journal of Biological Chemistry. 278 (9): 7278–7284. doi:10.1074/jbc.m208819200. PMID 12446706.
6. "LinkedIn group Berkeley Madonna". LinkedIn.com. Retrieved February 8, 2023.
7. Vinnycky, Emilia; White, Richard (2010-05-13). An introduction to infectious disease modelling. Oxford University Press. ISBN 978-0-19-856576-5.
8. Robson, MG; Toscano, WA (2007). Risk Assessment for Environmental Health. John Wiley & Sons. ISBN 9780787988593.
9. Weller, Florian; Sherley, Richard B.; Waller, Lauren J.; Ludynia, Katrin; Geldenhuys, Deon; Shannon, Lynne J.; Jarre, Astrid (2016). "System dynamics modelling of the Endangered African penguin populations on Dyer and Robben islands, South Africa". Ecological Modelling. 327: 44–56. Bibcode:2016EcMod.327...44W. doi:10.1016/j.ecolmodel.2016.01.011.

Further reading

• "Berkeley-Madonna Implementation of Ikeda's Model". pp. 582–585. (subscription required)

External links

• Official website