This is an archived course. A more recent version may be available at ocw.mit.edu.

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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)