Readings

The course textbook by Prof. Grodzinsky (Fields, Forces and Flows in Biological Systems) was provided to students as an unpublished manuscript.

References to "Deen" below are from the text: Buy at Amazon Deen, W. M. Analysis of Transport Phenomena. New York, NY: Oxford University Press, 1998. ISBN: 9780195084948.

ses # TOPICS readings
L1 Introduction/Summary

Examples
Grodzinsky. Chapter 2, "Membrane Transport Phenomena."

Deen 1.2, 1.4, 1.6, 2.2, 2.4, 2.6, 2.7, 2.8, 3.2, 3.3, 3.4, and Appendix.
I. Chemical Subsystem
L2 Continuity of Chemical Species, Flux, Reaction Rates, Boundary Conditions Grodzinsky. Chapter 2, "Membrane Transport Phenomena."

Deen 1.2, 1.4, 1.6, 2.2, 2.4, 2.6, 2.7, 2.8, 3.2, 3.3, 3.4, and Appendix.
L3 Diffusion

Begin Reaction

Damkohler #

Scaling and Approximations
Grodzinsky. Chapter 2, "Membrane Transport Phenomena."

Deen 1.2, 1.4, 1.6, 2.2, 2.4, 2.6, 2.7, 2.8, 3.2, 3.3, 3.4, and Appendix.
L4 Example Problems: Separation of Variables Method Grodzinsky. Chapter 2, "Membrane Transport Phenomena."

Deen 1.2, 1.4, 1.6, 2.2, 2.4, 2.6, 2.7, 2.8, 3.2, 3.3, 3.4, and Appendix.
L5 Example Problems: Separation of Variables Method (cont.)

Case Study: IGF Problem from Lecture L1 using Matrix Continuum Distribution of IGF Binding Proteins

Numerical Considerations (if time)
Grodzinsky. Chapter 2, "Membrane Transport Phenomena."

Deen 1.2, 1.4, 1.6, 2.2, 2.4, 2.6, 2.7, 2.8, 3.2, 3.3, 3.4, and Appendix.
III. Cellular Applications
L14 Experimental Methods Paper for discussion: Graff, C., and D. Wittrup. "Theoretical Analysis of Antibody Targeting of Tumor Spheroids: Importance of Dosage for Penetration, and Affinity for Retention." Cancer Res 2003.
L15 Ligand Binding to Cell Receptors Paper for discussion: Haugh, et. al. "Spatial Sensing in Fibroblasts Mediated by 3' Phosphoinositides." J Cell Biol. 151, no. 6 (2000): 1269.

———. "Online Supplemental Material." J. Cell Biol. 151, no. 6 (2000).