Readings

Required Texts

Amazon logo Fogler, H. S. Elements of Chemical Reaction Engineering. 4th ed. Upper Saddle River, NJ: Prentice-Hall PTR, 2006. ISBN: 9780130473943.

There will also be reading from the manuscript of the forthcoming textbook Biological Kinetics by K. Dane Wittrup and Bruce Tidor.

Recommended Texts

Amazon logo Levenspiel, O. Chemical Reaction Engineering. 3rd ed. New York, NY: Wiley, 1999. ISBN: 9780471254249.

Amazon logo Smith, J. Chemical Engineering Kinetics. 3rd ed. New York, NY: McGraw-Hill, 1981. ISBN: 9780070587106.

Amazon logo Steinfeld, J. I., J. S. Francisco, and W. L. Hase. Chemical Kinetics and Dynamics. 2nd ed. Upper Saddle River, NJ: Prentice Hall, 1999. ISBN: 9780137371235.

Amazon logo Bailey, J. E., and D. F. Ollis. Biochemical Engineering Fundamentals. 2nd ed. New York, NY: McGraw-Hill, 1986. ISBN: 9780070032125.

Amazon logo Stephanopoulos, G., A. Aristidou, and J. Nielsen. Metabolic Engineering: Principles and Methodologies. San Diego, CA: Academic Press, 1998. ISBN: 9780126662603.

Readings by Session

Instructors:
WHG = William H. Green
KDW = K. Dane Wittrup


 

SES # TOPICS READINGS
L1 Preliminaries and remembrance of things past. Reaction stoichiometry, lumped stoichiometries in complex systems such as bioconversions and cell growth (yields); extent of reaction, independence of reactions, measures of concentration. Single reactions and reaction networks, bioreaction pathways. (WHG)  
L2 The reaction rate and reaction mechanisms: Definition in terms of reacting compounds and reaction extent; rate laws, Arrhenius equation, elementary, reversible, non-elementary, catalytic reactions. (WHG) Fogler, sections 1.0-1.4.1 and 3.0-3.5.
R1 Recitation 1  
L3 Kinetics of cell growth and enzymes. Cell growth kinetics; substrate uptake and product formation in microbial growth; enzyme kinetics, Michaelis-Menten rate form. (KDW)

Fogler, sections 7.2 and 7.4.0-7.4.4.

"Enzyme Kinetics." Chapter 6 in Biological Kinetics.

L4 Kinetics of cell growth and enzymes. Cell growth kinetics; substrate uptake and product formation in microbial growth; enzyme kinetics, Michaelis-Menten rate form. (KDW) Fogler, section 7.1.
R2 Recitation 2  
L5 Continuous stirred tank reactor (CSTR). Reactions in a perfectly stirred tank. Steady-state CSTR. (KDW) Fogler, sections 1.4.1, 2.1, 2.3.1, 2.4, 2.5, 4.1, and 4.2.1.
L6 Concentration that optimizes desired rate. Selectivity vs. Conversion. Combining reactors with separations. (WHG) Fogler, sections 6.0-6.4 and 6.6.
R3 Recitation 3  
L7 Batch reactor: Equations, reactor sizing for constant volume and variable volume processes. (KDW) Fogler, sections 1.2, 1.3, 1.5, 2.1, 2.2, 4.1, and 4.2.1.
L8 The plug flow reactor. (WHG) Fogler, sections 1.4.2, 1.4.3, 2.1, 2.2.2, 2.3 (PFR), 2.4 (PFR), 3.3.3, 3.3.4, 3.4, 3.5, 4.3, and 4.4.
R4 Recitation 4  
L9 Reactor size comparisons for PFR and CSTR. Reactors in series and in parallel. How choice of reactor affects selectivity vs. conversion. (KDW) Fogler, sections 2.2, 2.3, 2.4, 2.5, and 4.7.
L10 Non-ideal reactor mixing patterns. Residence time distribution. Tanks in series model. Combinations of ideal reactors. (KDW) Fogler, sections 13.1-13.4, 14.2, and 14.7.
R5 Recitation 5  
L11 Non isothermal reactors. Equilibrium limitations, stability. Derivation of energy balances for ideal reactors; equilibrium conversion, adiabatic and nonadiabatic reactor operation. (WHG) Fogler, sections 8.0-8.8.
L12 Data collection and analysis. Experimental methods for the determination of kinetic parameters of chemical and enzymatic reactions; determination of cell growth parameters; statistical analysis and model discrimination. (WHG)

Fogler, chapter 5.

"Theory and Practice of Biomolecular Measurements." Chapter 4 in Biological Kinetics.

R6 Recitation 6  
L13 Biological reactors - chemostats. Theory of the chemostat. Fed batch or semi-continuous fermentor operation. (KDW)

Fogler, section 7.4.

"Cell Growth and Death." Chapter 7 in Biological Kinetics.

  Midterm exam 1  
R7 Recitation 7: Review of midterm exam 1 and WebLab experiment  
L14 Kinetics of non-covalent bimolecular interactions. Significance; typical values and diffusion limit; approach to equilibrium; multivalency. (KDW) "Noncovalent Binding Interactions." Chapter 2 in Biological Kinetics.
L15 Gene expression and trafficking dynamics. Approach to steady state; receptor trafficking. (KDW) "Binding Equilibria and Kinetics." Chapter 3 in Biological Kinetics.
R8 Recitation 8  
L16 Catalysis. Inorganic and enzyme catalysts and their properties; kinetics of heterogeneous catalytic reactions; adsorption isotherms, derivation of rate laws; Langmuir-Hinshelwood kinetics. (WHG) Fogler, sections 10.1, 10.2, and 10.3.
L17 Mass transfer resistances. External diffusion effects. Non-porous packed beds and monoliths, immobilized cells. (WHG) Fogler, sections 11.1, 11.2, and 11.3.
L18 External mass-transfer resistance: Gas-liquid reactions in multiphase systems. (KDW) Fogler, section 11.3.
L19 Oxygen transfer in fermentors. Applications of gas-liquid transport with reaction. (KDW)  
R9 Recitation 9  
  Midterm exam 2  
L20 Reaction and diffusion in porous catalysts. Effective diffusivity, internal and overall effectiveness factor, Thiele modulus, apparent reaction rates. (KDW) Fogler, sections 12.1, 12.2, 12.3, 12.4, and 12.5.
R10 Recitation 10  
L21 Reaction and diffusion in porous catalysts (cont.). Packed Bed Reactors. (WHG) Fogler, sections 12.5 and 12.6.
L22 Combined internal and external transport resistances. (WHG) Fogler, sections 8.9 and 12.7.
R11 Recitation 11  
L23 Pulling it all together; applications to energy/chemicals industry. Presentation of current research. (WHG)  
L24 Pulling it all together; applications to bioengineering and medicine. Presentation of current research. (KDW)  
R12 Recitation 12  
L25 Course review. (WHG)  
  Final exam  

Error in Fogler: Superficial Velocity or Actual Velocity (PDF)