## Required Texts

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

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

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

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.

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

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 |

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 |

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 |

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)