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Readings

Instructors

DAL: Prof. Douglas Lauffenburger
FMW: Prof. Forest White
KA: Kathyryn Armstrong
SW: Shan Wu
CR: Craig Rothman

Textbooks

[W&T] Tidor, Bruce, and K. Dane Wittrup. Biological Kinetics.

[L&L] Amazon logo Lauffenburger, Douglas A., and Jennifer Linderman. Models for Binding, Trafficking, and Signaling. New York, NY: Oxford University Press, 1996. ISBN: 9780195106633.

SES # INSTRUCTORS TOPICS READINGS
L1 FMW Introduction - 20, 20.320, Biology, Mechanisms, and Modeling Protein Interactions W&T. Chapter 2.
R1 KA/SW/CR Recitation 1
L2 FMW Protein Interactions II

Thermodynamics of Monovalent Interactions		 W&T. Chapter 2, 2.5.2.
L3 FMW Monovalent Interactions W&T. Chapter 3.
R2 Recitation 2
L4 FMW Fractional Saturation W&T. Chapter 3.1-3.2.
L5 FMW Measurement Techniques for Kd
R3 KA/SW/CR Recitation 3
L6 FMW Perturbations to Monovalent Interactions
L7 FMW Perturbations II - Solution Effects
R4 Recitation 4
L8 FMW Multivalent Binding W&T. Chapter 3.3.
L9 FMW Cooperativity W&T. Chapter 3.3.2.
R5 Recitation 5
L10 FMW Avidity and Effective Concentration W&T. Chapter 3.3.2.
R6 CR/SW Recitation 6
FMW Exam 1 - Monovalent Binding, Measurement, Perturbations, Multivalent Binding, Cooperativity
L11 FMW Enzyme Kinetics I
L12 FMW Enzyme Kinetics II
R7 Recitation 7
R8 Recitation 8
L13 DAL Enzyme Inhibitors
L14 DAL Integrating Pathways Into Networks
R9 Recitation 9
L15 DAL Ligand-Receptor Interactions
L16 DAL Endocytic Trafficking I L&L. Chapter 3.
R10 Recitation 10
R11 CR/SW Recitation 11
DAL/FMW Exam 2 - Avidity, Enzymes, and Networks
L17 DAL Endocytic Trafficking II L&L. Chapter 6.1.3b.
L18 DAL Biomolecular Reactions in Context of Transport
R12 Recitation 12
L19 DAL Fundamentals of Molecular Transport
L20 DAL Reaction Terms and Approximations
R13 Recitation 13
L21 DAL Macroscopic and Microscopic Effects of Diffusion
L22 DAL Autocrine/Paracrine Cell-cell Communication L&L. Chapter 6.1.3c.
R14 Recitation 14
L23 DAL Cell Population Dynamics I: Cell Growth, Death, Differentiation, and Product Synthesis
L24 DAL Cell Population Dynamics II: Application to Tissues and Bioreactors
DAL Exam 3 - Test Accumulated Knowledge (Emphasis on Mechanisms Underlying Biomolecular Systems)