Modeling References

Binding and Kinetics for Molecular Biologists - James A. Goodrich, Jennifer F. Kugel, Cold Spring Harbor Laboratory Press, Cold Spring Harbor NY, 2007.

A Cell Biologist's Guide to Modeling and Bioinformatics. - Raquell Holmes. This book contains a chapter with step by step discussion on creating a spatial calcium model originally published by Fink et. al., 2000.

Computational Cell Biology - Christopher P. Fall, Eric S. Marland, John M. Wagner, John J. Tyson, Springer, 2004. This textbook provides an introduction to dynamic modeling in cell biology. Access the VCell Models for Computational Cell Biology

The Geometry of Biological Time- Art Winfree, Springer, 2001.
Written for advanced undergraduates, graduate students and researchers, this book presents a mathematical description of periodic processes in biological systems and their non-living analogues.

Handbook of Stochastic Methods for Physics Chemistry and the Natural Sciences - Crispin W. Gardiner, 3rd ed. Springer, 2004. This reference presents methods and formulas used in statistical physics, for those working in theoretical physics, physical chemistry and other related studies.

Mathematical Biology - James D. Murray, 2nd ed., Springer, 1993.
An Introduction for undergraduate and graduate students to modeling questions that are found in biology and how modeling can be used.

Mathematical Physiology - James Keener and James Sneyd. , 2nd ed., Springer, 2008.
Presents numerous physiology based mathematical models for students and researchers in bioengineering,biology, chemistry, medicine, physics, and statistics.

Physical Biology of the Cell - Rob Phillips, Jane Kondev and Julie Theriot, Crystallography Reviews, 2009.
A textbook that investigates cellular and molecular biology through physics and mathematics.

Random Walks in Biology - Howard C. Berg, (Princeton, Princeton NJ, 1983), 2nd expanded edition, 1993.
Introductory book for biochemistry, biophysics and biology students on the theory of statistical physics.

Introduction to Systems Biology: design principles of biological circuits - Uri Alon, Chapman & Hall, 2007. Presents simple mathematical descriptions of biological circuits.