BENG 161A Bioreactor Engineering

Spring Quarter, 2007

Tuesdays and Thursdays 6:00 pm - 7:20 pm, Fung Auditorium
September 27th - December 6th, 2007

Handouts Topics

We will use the UCSD WebCT system to distribute grades and conduct online chat rooms. Use your ACS username and password to access ClassWeb and WebCT.

Course Objectives

Introduction to the principles and practices of biochemical engineering. Important engineering, biochemical and physiological considerations in the design of bioreactor processes: enzyme kinetics, mass transfer limitations, microbial growth and product formation kinetics. Fermentation reactor selection, design, scale-up, and control.


Dr. Robert Sah (UCSD), Professor of Bioengineering
email: <rsah AT ucsd DOT edu>
Powell-Focht Bioengineering Hall, room 314
Office Hours: by appointment

Dr. Amy Sung (UCSD), Professor of Bioengineering
email: <lasung AT ucsd DOT edu>

Dr. Jeffrey Jacot (UCSD), Research Fellow, Dept of Bioengineering
email: <jjacot AT ucsd DOT edu>
Powell-Focht Bioengineering Hall, room 241
Office Hours: Wednesdays 9-10am or by appointment.

Dr. Stephen Toon, Director of Manufacturing and Engineering, Verenium
4955 Directors Place
San Diego, CA 92121
Phone: 858-526-5255
email: <Stephen.Toon AT verenium DOT com>
Dr. Toon has 20 years experience in the development, design, construction, operations and optimization of bioprocesses including the "green field" start up of six new to the world fermentation operations and nine addition commercial scale processes in the biofuels, bioplastics, animal feed, bioremediation and human food products industries.

Dr. Helena Yusuf-Makagiansar (BiogenIdec)
email: <Helena.Yusuf-Makagiansar AT biogenidec DOT com>

Dr. Ashraf Amanullah (Genentech)
email: <amanullah.ashraf AT gene DOT com>

Dr. David Chang (Genentech)
email: <chang.david AT gene DOT com>

Graduate Student Instructors

Behrad Azimi
EMAIL: <bazimi AT ucsd DOT edu>

Martin Kolnik
EMAIL: <mkolnik AT ucsd DOT edu>

Problem Solving Sessions




Graduate Student Instructor


3:00 - 3:50 pm

HSS 2305A


11:00 - 11:50 am

U413A 1


12:00 - 12:50 pm

HSS 2305B

Final Exam

12/11/2007 Tu 7:00p - 10:00p Room TBA

Corporate Tours

Genentech December 6, 2007 Biogen Idec October 25, 2007


Grade of C- or better in CHEM 114B OR BIBC 102, BENG 122A or BENG 123, BIB 103 or BENG160 (may be taken concurrently), majors only,or consent of the instructor. In addition, BENG 103B is strongly recommended.


  • Shuler, ML & Kargi, F. Bioprocess Engineering: Basic Concepts. 2nd Ed. Prentice Hall PTR. Upper Saddle River, NJ. 2002.


Computer and network access will be needed for assignments in this course. All UCSD engineering students are eligible for OCE (Open Computing Environment) computer accounts (Unix) through the Academic Computing Center. You can see what kind of account you have on-line using the Account Lookup Tool at It will also show you what class allocations you have for OCE compatible classes in your major. If you do not already have an account with UCSD, you can register for one from the web site. If you do not have one for Engineering, but you are an Engineering major, you can upgrade your current account to an OCE account.

For dial-in services, a dial-in account can be obtained for a monthly fee from Academic Network Operations (534-1857). More information is available at

Computing labs are available throughout the campus including room 161 in Powell-Focht Bioengineering Hall. For assistance with UCSD instructional computing facilities, do not come to the instructor or TAs as they are not managed by departmental personnel. You can email questions to . Student "Zebra" consultants are available to help in ACS labs on weekdays and evenings.




Quiz 1


Tuesday, October 23, 2007

Quiz 2


Tuesday, November 20, 2007

Final Examination


Tuesday, December 11, 2007 7:00p - 10:00p

Grading Policy

Students are not discouraged from discussing homework assignments among themselves or engaging in group study. However, individual homework assignments must be the sole work of the submitting student. Specific guidance will be given in the case of group projects. When submitted coursework incorporates material authored by a third party, the source should always be attributed according to the accepted standards of scholarly endeavor. Material taken from the internet or other forms of electronic media are subject to the same requirements of attribution applicable to printed reference sources or materials. Work suspected of being tainted by plagiarism will receive no credit.

You may not receive help from other students during the exams and final.

Every effort will be made to accept homework assignments that are handed in a little late. However, all late homework, whether an extension was approved or not, may be subject to a late penalty at the sole discretion of the grader. We cannot guarantee that late assignments will be returned on time, and they may not be eligible for regrading. Homework received after worked solutions have been handed out will receive no credit. Regrades: In fairness to all students, work is only regraded when there is evidence of grading error. We reserve the right to regrade an entire piece of work. In cases of suspected academic dishonesty including cheating in an examination or altering graded work and resubmitting it, the student will be handed a copy of the student conduct code, and the case will be referred to the appropriate dean. The academic penalty for serious academic dishonesty will generally be a grade of F. The Department of Bioengineering adheres to the UCSD Policy on Integrity of Scholarship. This Policy states that "Students are expected to complete the course in compliance with the instructor's standards. No student shall engage in any activity that involves attempting to receive a grade by means other than honest effort ..." Pertinent university policies are described in abbreviated form at The full descriptions of these polices, as well as others regarding exams, grading policies, etc, are given in full in the General Catalogue at: as well as in the quarterly Schedule of Classes.

Department Seminars (BENG 281)

Fridays 2:30 - 3:30 p.m. in the Y-C Fung Auditorium. The schedule of speakers is posted on the Bioengineering Department web pages.