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Bioengineering

Mail Code: 94305-4245
Student Services Phone: Graduate students: (650) 498-2408; Undergraduates: (650) 724-5314
Web Site: http://bioengineering.stanford.edu

Courses offered by the Department of Bioengineering are listed under the subject code BIOE on the Stanford Bulletin's ExploreCourses web site.

Bioengineering is jointly supported by the School of Engineering and the School of Medicine. The facilities and personnel of the Department of Bioengineering are housed in the Shriram Center,  James H. Clark Center, the William F. Durand Building for Space Engineering and Science, the William M. Keck Science Building, the Jerry Yang and Akiko Yamazaki Environment and Energy Building, and the Richard M. Lucas Center for Magnetic Resonance Spectroscopy and Imaging. The departmental headquarters is in the Shriram Center for Bioengineering and Chemical Engineering.

Courses in the teaching program lead to the degrees of Bachelor of Science in Engineering (Bioengineering), Master of Science and Doctor of Philosophy. The department collaborates in research and teaching programs with faculty members in Chemical Engineering, Mechanical Engineering, Electrical Engineering, and departments in the School of Medicine. Quantitative biology is the core science base of the department. The research and educational thrusts are in biomedical computation, biomedical imaging, biomedical devices, regenerative medicine, and cell/molecular engineering. The clinical dimension of the department includes cardiovascular medicine, neuroscience, orthopedics, cancer care, neurology, and environment.

Mission of the Undergraduate Program in Bioengineering

The Stanford Bioengineering (BioE) major enables students to combine engineering and the life sciences in ways that advance scientific discovery, healthcare and medicine, manufacturing, environmental quality, culture, education, and policy. Students who major in BioE earn a fundamental engineering degree for which the raw materials, underlying basic sciences, fundamental toolkit, and future frontiers are all defined by the unique properties of living systems.

The department offers an undergraduate major in Bioengineering (BioE) leading to the B.S. degree in Engineering. An undergraduate major in Biomechanical Engineering and an undergraduate major in Biomedical Computation, both of which lead to the B.S. degree in Engineering, are available through the School of Engineering. For further information, see the Handbook for Undergraduate Engineering Programs at http://ughb.stanford.edu.

Learning Outcomes (Graduate)

The purpose of the master’s program is to provide students with the knowledge and skills necessary for a professional career or doctoral studies. This is done through course work with specialization in an area of the field, including biomedical computation, regenerative medicine and tissue engineering, molecular and cell bioengineering, biomedical imaging, and biomedical devices.

The Ph.D. is conferred upon candidates who have demonstrated substantial scholarship and the ability to conduct independent research. Through course work and guided research, the program prepares students to make original contributions in Bioengineering and related fields.

Graduate Programs in Bioengineering

The University’s requirements for the M.S. and Ph.D. degrees are outlined in the “Graduate Degrees” section of this bulletin.

Admission

Students are expected to enter with a series of core competencies in mathematics, biology, chemistry, physics, computing, and engineering. Students entering the program are assessed by the examination of their undergraduate transcripts and research experiences. Specifically, the department requires that students have completed mathematics through multivariable calculus and differential equations, completed a series of undergraduate biology courses and completed physics, chemistry, and computer sciences courses required of all undergraduate majors in engineering.

Qualified applicants are encouraged to apply for predoctoral national competitive fellowships, especially those from the National Science Foundation. Applicants to the Ph.D. program should consult with their financial aid officers for information and applications.

The deadline for receiving applications is December 2, 2014.

Further information and application forms for all graduate degree programs may be obtained from Graduate Admissions, the Registrar’s Office, http://gradadmissions.stanford.edu.

Bachelor of Science in Engineering (Bioengineering)

The department offers an undergraduate major in Bioengineering (BioE) leading to the B.S. degree in Engineering. For additional information, see the Handbook for Undergraduate Engineering Programs at http://ughb.stanford.edu.


Bioengineering (BioE)

Completion of the undergraduate program in Bioengineering leads to the conferral of the Bachelor of Science in Engineering. The subplan "Bioengineering" appears on the transcript and on the diploma.

Mission of the Undergraduate Program in Bioengineering

The Stanford Bioengineering (BioE) major enables students to combine engineering and the life sciences in ways that advance scientific discovery, healthcare and medicine, manufacturing, environmental quality, culture, education, and policy. Students who major in BioE earn a fundamental engineering degree for which the raw materials, underlying basic sciences, fundamental toolkit, and future frontiers are all defined by the unique properties of living systems.

Students will complete engineering fundamentals courses, including an introduction to BioE and computer programming. A series of core BioE classes beginning in the second year leads to a student-selected depth area and a senior capstone design project. The department also organizes a summer Research Experience for Undergraduates (REU) program. BioE graduates are well prepared to pursue careers and lead projects in research, medicine, business, law, and policy.

Requirements

Mathematics 1
28 units minimum required, see Basic Requirement 1)
MATH 41
  & MATH 42

   and Calculus (or AP Calculus)
10
Select one of the following:
CME 100 (Recommended)5
or MATH 51
Select one of the following:
CME 102 (Recommended)5
or MATH 53
Select one of the following:
CME 104 (Recommended)5
or MATH 52
CME 106Introduction to Probability and Statistics for Engineers (Recommended)3-5
or STATS 110
or STATS 141
Science 2
28 units minimum:
CHEM 31X5-10
or CHEM 31A
  & CHEM 31B
Chemical Principles I
   and
CHEM 33Structure and Reactivity5
BIO 41Genetics, Biochemistry, and Molecular Biology5
BIO 425
PHYSICS 414
PHYSICS 434
Technology in Society
One course required; see Basic Requirement 4
BIOE 131Ethics in Bioengineering (WIM)3
Engineering Fundamentals
ENGR 70A (same as CS 106A)5
ENGR 804
Fundamentals Elective; see UGHB Fig. 3-4 for approved course list; may not use ENGR 70B or ENGR 70X3-5
Bioengineering Core
BIOE 414
BIOE 424
BIOE 444
BIOE 51Anatomy for Bioengineers4
BIOE 101Systems Biology4
BIOE 1034
BIOE 1234
BIOE 141A4
BIOE 141B4
Bioengineering Depth Electives
Four courses, minimum 12 units:12
Computational Modeling of Microbial Communities
Diagnostic Devices Lab
BIOE 211
BIOE 212
BIOE 214
BIOE 220
BIOE 222
BIOE 223
BIOE 224
BIOE 227
BIOE 231
Advanced Frameworks and Approaches for Engineering Integrated Genetic Systems
BIOE 260
BIOE 281
BIOE 287
BIOE 291
Total Units119-128
1

It is strongly recommended that CME 100 , CME 102 , and CME 104 ) be taken rather than MATH 51 , MATH 52 , and MATH 53 . CME 106 Introduction to Probability and Statistics for Engineers utilizes MATLAB, a powerful technical computing program, and should be taken rather than STATS 110 or STATS 141 . If  you are taking the MATH 50 series, it is strongly recommended to take MATH 51M Introduction to MATLAB or CME 192 Introduction to MATLAB.

2

Science must include both Chemistry (CHEM 31A Chemical Principles I and CHEM 31B ; or CHEM 31X or ENGR 31 ) and calculus-based Physics, with two quarters of course work in each, in addition to two courses of BIO core. CHEM 31A Chemical Principles I and CHEM 31B are considered one course even though given over two quarters. Premeds should take Chemistry, not ENGR 31 .

For additional information and sample programs see the Handbook for Undergraduate Engineering Programs (UGHB). Students pursuing a premed program need to take additional courses; see the UGHB, BioE Premed 4-Year Plan.

Honors Program

The School of Engineering offers a program leading to a Bachelor of Science in Engineering: Bioengineering with Honors (ENGR-BSH, BIOE). This program provides the opportunity for qualified BioE majors to conduct independent research at an advanced level with a faculty research adviser and documented in an honors thesis.

In order to receive departmental honors, students admitted to the program must:

  1. Declare the honors program in Axess (ENGR-BSH, Subplan: Bioengineering).
  2. Maintain an overall grade point average (GPA) of at least 3.5 as calculated on the unofficial transcript.
  3. Complete at least two quarters of research with a minimum of nine units of BIOE 191 or BIOE 191X for a letter grade; up to three units may be used towards the bioengineering depth elective requirements.  
  4. Submit a completed thesis draft to the honors adviser and second reader by the first week of Spring Quarter. Further revisions and final endorsement are to be finished by the second Monday in May, when two signed bound copies plus one PC-compatible CD-ROM are to be submitted to the student services officer.
  5. Attend the Bioengineering Honors Symposium at the end of Spring Quarter and give a poster or oral presentation, or present in another approved suitable forum.  

 For more information and application instructions, see the department's undergraduate site


 

Coterminal B.S./M.S. Program in Bioengineering

This option is available to outstanding Stanford undergraduates who wish to work simultaneously toward a B.S. in another field and an M.S. in Bioengineering. The degrees may be granted simultaneously or at the conclusion of different quarters, though the bachelor’s degree cannot be awarded after the master’s degree has been granted. The University minimum requirements for the coterminal bachelor’s/master’s program are 180 units for the bachelor’s degree plus 45 unduplicated units for the master’s degree. Students may apply for the coterminal B.S. and M.S. program after 120 undergraduate units have been completed, and they must be accepted into our program one quarter before receiving the B.S. degree. Students should apply directly to the Bioengineering Student Service Office by November 3, 2014. Students interested in the coterminal degree must take the Graduate Record Examination (GRE). Prospective applicants should see the department's web site for application form, instructions, and supporting documents.

University requirements for the coterminal M.A. are described in the "Coterminal Bachelor's and Master's Degrees" section of this bulletin. For University coterminal degree program rules and University application forms, see the Stanford Undergrad Coterm Guide.

The application must provide evidence of potential for strong academic performance as a graduate student. The application is evaluated and acted upon by the graduate admissions committee of the department. Students are expected to enter with a series of core competencies in mathematics, biology, chemistry, physics, computing, and engineering. Typically, a GPA of at least 3.5 in engineering, science, and math is expected.

Master of Science in Bioengineering

The Master of Science in Bioengineering requires 45 units of course work. The curriculum consists of core bioengineering courses, technical electives, seminars and unrestricted electives. Core courses focus on quantitative biology and biological systems analysis. Approved technical electives are chosen by the student in consultation with his/her graduate adviser, and can be selected from graduate course offerings in mathematics, statistics, engineering, physical sciences, life sciences, and medicine. Seminars highlight emerging research in bioengineering and provide training in research ethics. Unrestricted electives can be freely chosen by the student in association with his/her adviser.

Requirements

The department’s requirements for the M.S. in Bioengineering are:

1. Core Bioengineering courses (10-11 units)

The following courses are required:

BIOE 300A3
BIOE 300B3
Select two of the following:4-5
BIOE 301A
BIOE 301B
BIOE 301C
Total Units10-11

These courses, together with the approved technical electives, should form a cohesive course of study that provides depth and breadth.

2. Approved Technical Electives (26 units)

These units must be selected from graduate courses in mathematics, statistics, engineering, physical science, life science, and medicine. They should be chosen in concert with the bioengineering courses to provide a cohesive degree program in a bioengineering focus area. Students are required to take at least one course in some area of device or instrumentation. Up to 9 units of directed study and research may be used as approved electives.

3. Seminars (4 units)

The seminar units should be fulfilled through:

BIOE 393 (Students enroll each quarter for 1 unit)3
MED 2551
Total Units4

Other relevant seminar units may also be used with the approval of the faculty adviser. One of the seminar units must be MED 255 .

4. Unrestricted Electives (6 units).

Students are assigned an initial faculty adviser to assist them in designing a plan of study that creates a cohesive degree program with a concentration in a particular bioengineering focus area. These focus areas include, but are not limited to: Biomedical Computation, Regenerative Medicine/Tissue Engineering, Molecular and Cell Bioengineering, Biomedical Imaging, and Biomedical Devices.

To ensure that an appropriate program is pursued by all M.S. candidates, students who first matriculate at Stanford at the graduate level must:

  1. submit an adviser-approved Program Proposal for a Master’s Degree form to the student services office during the first month of the first quarter of enrollment
  2. obtain approval from the M.S. adviser and the Chair of Graduate Studies for any subsequent program change or changes.

It is expected that the requirements for the M.S. in Bioengineering can be completed within approximately one year. There is no thesis requirement for the M.S.

Due to the interdisciplinary nature of Bioengineering, a number of courses are offered directly through the Bioengineering Department but many are available through other departments. See respective ExploreCourses for course descriptions.

Doctor of Philosophy in Bioengineering

A student studying for the Ph.D. degree must complete a master’s degree (45 units) comparable to that of the Stanford M.S. degree in Bioengineering. Up to 45 units of master’s degree residency units may be counted towards the degree. The Ph.D. degree is awarded after the completion of a minimum of 135 units of graduate work as well as satisfactory completion of any additional University requirements. Students admitted to the Ph.D. program with an M.S. degree must complete at least 90 units of work at Stanford. The maximum number of transfer units is 45.

On the basis of the research interests expressed in their application, students are assigned an initial faculty adviser who assists them in choosing courses and identifying research opportunities. The department does not require formal lab rotations, but students are encouraged to explore research activities in two or three labs during their first academic year.

Prior to being formally admitted to candidacy for the Ph.D. degree, the student must demonstrate knowledge of bioengineering fundamentals and a potential for research by passing a qualifying oral examination.

Typically, the exam is taken shortly after the student earns a master’s degree. The student is expected to have a nominal graduate Stanford GPA of 3.25 to be eligible for the exam. Once the student’s faculty sponsor has agreed that the exam is to take place, the student must submit an application folder containing items including a curriculum vitae, research project abstract, and preliminary dissertation proposal to the student services office. Information about the exam may be obtained from the student services office.

In addition to the course requirements of the M.S. degree, doctoral candidates must complete a minimum of 15 additional units of approved formal course work (excluding research, directed study, and seminars).

Dissertation Reading Committee

Each Ph.D. candidate is required to establish a reading committee for the doctoral dissertation within six months after passing the department’s Ph.D. qualifying exams. Thereafter, the student should consult frequently with all members of the committee about the direction and progress of the dissertation research.

A dissertation reading committee consists of the principal dissertation adviser and at least two other readers. Reading committees in Bioengineering may include faculty from another department. It is expected that at least one member of the Bioengineering faculty be on each reading committee. The initial committee, and any subsequent changes, must be officially approved by the department Chair.

University Oral and Dissertation

The Ph.D. candidate is required to take the University oral examination after the dissertation is substantially completed (with the dissertation draft in writing), but before final approval. The examination consists of a public presentation of dissertation research, followed by substantive private questioning on the dissertation and related fields by the University oral committee (four selected faculty members, plus a chair from another department). Once the oral has been passed, the student finalizes the dissertation for reading committee review and final approval. Forms for the University oral scheduling and a one-page dissertation abstract should be submitted to the department student services office at least three weeks prior to the date of the oral for departmental review and approval.

Ph.D. Minor in Bioengineering

Doctoral students pursuing a Ph.D. degree in a major other than Bioengineering may apply for the Ph.D. minor in Bioengineering. A minor is a not a requirement for any degree, but is available when agreed upon by the student and the major and minor department.

Application forms, including the University's general requirements, can be found at http://registrar.stanford.edu/shared/forms.htm.

A student desiring a Ph.D. minor in Bioengineering must have a minor program advisor who is a regular Bioengineering faculty member. This advisor must be a member of the student's reading committee for the doctoral dissertation, and the entire reading committee must meet at least one year prior to the date of the student's dissertation defense.

The Ph.D. minor program must include at least 20 units of course work in Stanford Bioengineering or Bioengineering cognate courses at or above the 200 level. Of these 20 units, no more than 10 can be in cognate courses. All courses listed to fulfill the 20-unit requirement must be taken for a letter grade and the GPA must be at least 3.25. Courses used for a minor may not be used to also meet the requirements for a master's degree.

M.D./Ph.D. Dual Degree Program

Students interested in a career oriented towards bioengineering and medicine can pursue the combined M.D./Ph.D. degree program. Stanford has two ways to do an M.D./Ph.D. U.S. citizens and permanent residents can apply to the Medical Scientist Training Program and can be accepted with funding from both M.D. and Ph.D. programs for stipend and tuition. They can then select a bioengineering laboratory for their Ph.D. Students not admitted to the Medical Scientist Training Program must apply to be admitted separately to the M.D. program and the Ph.D. program of their choice.

The Ph.D. is administered by the Department of Bioengineering. To be formally admitted as a Ph.D. degree candidate in this combined degree program, the student must apply through normal departmental channels and must have earned or have plans to earn an M.S. in bioengineering or other engineering discipline at Stanford or another university. The M.S. requires 45 units of course work which consists of core bioengineering courses, technical electives, seminars, and 6 unrestricted units. Students must also pass the Department of Bioengineering Ph.D. qualifying examination.

For students fulfilling the full M.D. requirements who earned their master’s level engineering degree at Stanford, the Department of Bioengineering waives the normal departmental requirement of 15 units applied towards the Ph.D. degree beyond the master’s degree level through formal course work. Consistent with the University Ph.D. requirements, the department accepts 15 units comprised of courses, research, or seminars approved by the student’s academic adviser and the department chair. Students not completing their M.S. engineering degree at Stanford are required to take 15 units of formal course work in engineering-related areas as determined by their academic adviser.

Joint Degree Programs in Bioengineering and the School of Law

The School of Law and the Department of Bioengineering offer joint programs leading to either a J.D. degree combined with an M.S. degree in Bioengineering or to a J.D. degree combined with a Ph.D. in Bioengineering.

The J.D./M.S. and J.D./Ph.D. degree programs are designed for students who wish to prepare themselves intensively for careers in areas relating to both law and bioengineering. Students interested in either joint degree program must apply and gain entrance separately to the School of Law and the Department of Bioengineering and, as an additional step, must secure permission from both academic units to pursue degrees in those units as part of a joint degree program. Interest in either joint degree program should be noted on the student's admission applications and may be considered by the admission committee of each program. Alternatively, an enrolled student in either the Law School or the Bioengineering Department may apply for admission to the other program and for joint degree status in both academic units after commencing study in either program.

Joint degree students may elect to begin their course of study in either the School of Law or the Department of Bioengineering. Faculty advisers from each academic unit will participate in the planning and supervising of the student's joint program. Students must be enrolled full time in the Law School for the first year of law school, and, at some point during the joint program, may be required to devote one or more quarters largely or exclusively to studies in the Bioengineering program regardless of whether enrollment at that time is in the Law School or in the Department of Bioengineering. At all other times, enrollment may be in the graduate school or the Law School, and students may choose courses from either program regardless of where enrolled. Students must satisfy the requirements for both the J.D. and the M.S. or Ph.D. degrees as specified in the Stanford Bulletin or elsewhere.

The Law School shall approve courses from the Bioengineering Department that may count toward the J.D. degree, and the Bioengineering Department shall approve courses from the Law School that may count toward the M.S. or Ph.D. degree in Bioengineering. In either case, approval may consist of a list applicable to all joint degree students or may be tailored to each individual student's program. The lists may differ depending on whether the student is pursuing an M.S. or a Ph.D. in Bioengineering.

In the case of a J.D./M.S. program, no more than 45 units of approved courses may be counted toward both degrees. In the case of a J.D./Ph.D. program, no more than 54 units of approved courses may be counted toward both degrees. In either case, no more than 36 units of courses that originate outside the Law School may count toward the law degree. To the extent that courses under this joint degree program originate outside of the Law School but count toward the law degree, the law school credits permitted under Section 17(1) of the Law School Regulations shall be reduced on a unit-per-unit basis, but not below zero. The maximum number of law school credits that may be counted toward the M.S. or Ph.D. in Bioengineering is the greater of: (i) 15 units; or (ii) the maximum number of units from courses outside of the department that M.S. or Ph.D. candidates in Bioengineering are permitted to count toward the applicable degree under general departmental guidelines or in the case of a particular student's individual program. Tuition and financial aid arrangements will normally be through the school in which the student is then enrolled.

Chair: Norbert J. Pelc

Professors: Russ B. Altman, Annelise E. Barron, Kwabena Boahen, Dennis R. Carter, Karl Deisseroth, Scott L. Delp, Norbert J. Pelc, Stephen R. Quake, Matthew Scott, James R. Swartz, Paul Yock

Associate Professors: Jennifer R. Cochran, Markus Willard Covert, Andrew Endy, Jan T. Liphardt, Christina D. Smolke

Assistant Professors: Zev David Bryant, David B. Camarillo, Kerwyn C. Huang, Jin Hyung Lee, Michael Lin, Manu Prakash, Stanley Qi (effective October 2014), Ingmar Riedel-Kruse, Bo Wang (effective May 2015), Fan Yang

Courtesy Professors: Bruce Daniel, Daniel S. Fisher, Sanjiv Sam Gambhir, Garry Gold, Stuart B. Goodman, Thomas Krummel, Craig Levin, Michael T. Longaker, David Magnus, Lloyd B. Minor, Paul J. Wang, Joseph Woo

Courtesy Associate Professors: Rebecca Fahrig, Jeffrey A. Feinstein, Garry E. Gold, Brian Hargreaves, Sarah Heilshorn, Ellen Kuhl, Kim Butts Pauly, Marc E. Levenston, Sakti Srivastava

Courtesy Assistant Professors: James Wall

Consulting Faculty: Todd Brinton, Stephen Fodor, Uday Kumar, John Linehan, Gordon Saul, Charles Taylor

Graduate Related Courses

BIOMEDIN 2103
BIOMEDIN 2174
CHEMENG 4503
EE 369A
EE 369B3
ME 280
ME 2873
ME 381
RAD 226In Vivo Magnetic Resonance Spectroscopy and Imaging3

Courses

BIOE 10N. Form and Function of Animal Skeletons. 3 Units.

Preference to freshmen. The biomechanics and mechanobiology of the musculoskeletal system in human beings and other vertebrates on the level of the whole organism, organ systems, tissues, and cell biology. Field trips to labs.
Same as: ME 10N

BIOE 36Q. The Biophysics of Innate Immunity. 3 Units.

The innate immune system provides our first line of defense against disease--bothninfections, and cancer. Innate immune effectors such as host defense peptides arendeployed by numerous cell types (for instance neutrophils, macrophages, NK cells,nepithelial cells and keratinocytes) and work by biophysical mechanisms of action. The ourse draws from the primary literature and covers the evolution, structures, mechanisms,and physiological functions of important "innate immune effectors" (components of the innate immune system that can attack pathogens, and infected or host cells, and kill or incapacitate them directly). The course is aimed at students who have an interest in biochemistry, molecular/cellular biology, biophysics, and/or bioengineering.

BIOE 51. Anatomy for Bioengineers. 4 Units.

Fundamental human anatomy, spanning major body systems and tissues including nerve, muscle, bone, cardiovascular, respiratory, gastrointestinal, and renal systems. Explore intricacies of structure and function, and how various body parts come together to form a coherent and adaptable living being. Correlate clinical conditions and therapeutic interventions. Participate in lab sessions with predissected cadaveric material and hands-on learning to gain understanding of the bioengineering human application domain. Encourage anatomical thinking, defining challenges and opportunities for bioengineers.

BIOE 80. Introduction to Bioengineering. 4 Units.

Broad but rigorous overview of the field of bioengineering, centered around the common theme of engineering analysis and design of biological systems. Topics include biomechanics, systems and synthetic biology, physical biology, biomolecular engineering, tissue engineering, and devices. Emphasis on critical thinking and problem solving approaches, and quantitative methods applied to biology. 4 units, Spr (Cochran).
Same as: ENGR 80

BIOE 101. Systems Biology. 4 Units.

Complex biological behaviors through the integration of computational modeling and molecular biology. Topics: reconstructing biological networks from high-throughput data and knowledge bases. Network properties. Computational modeling of network behaviors at the small and large scale. Using model predictions to guide an experimental program. Robustness, noise, and cellular variation. Prerequisites: CME 102; BIO 41, BIO 42; or consent of instructor.
Same as: BIOE 210

BIOE 115. Computational Modeling of Microbial Communities. 4 Units.

Provides biologists with basic computational tools and knowledge to confront large datasets in a quantitative manner. Students learn basic programming skills focused on Matlab, but also are introduced to Perl and Python. Topics include: image analysis, bioinformatics algorithms, reaction diffusion modeling, Monte Carlo algorithms, and population dynamics. Students apply computational skills to a miniature research project studying the human gut microbiota.
Same as: MI 245

BIOE 131. Ethics in Bioengineering. 3 Units.

Bioengineering focuses on the development and application of new technologies in the biology and medicine. These technologies often have powerful effects on living systems at the microscopic and macroscopic level. They can provide great benefit to society, but they also can be used in dangerous or damaging ways. These effects may be positive or negative, and so it is critical that bioengineers understand the basic principles of ethics when thinking about how the technologies they develop can and should be applied. On a personal level, every bioengineer should understand the basic principles of ethical behavior in the professional setting. This course will involve substantial writing, and will use case-study methodology to introduce both societal and personal ethical principles, with a focus on practical applications.

BIOE 196. INTERACTIVE MEDIA AND GAMES. 1 Unit.

Interactive media and games increasingly pervade and shape our society. In addition to their dominant roles in entertainment, video games play growing roles in education, arts, and science. This seminar series brings together a diverse set of experts to provide interdisciplinary perspectives on these media regarding their history, technologies, scholarly research, industry, artistic value, and potential future.

BIOE 201C. Diagnostic Devices Lab. 2 Units.

This course exposes students to the engineering principles and clinical application of medical devices through lectures and hands-on labs, performed in teams of two. Teams take measurements with these devices and fit their data to theory presented in the lecture. Devices covered include X-ray, CT, MRI, EEG, ECG, Ultrasound and BMI (Brain-machine interface). Prerequisites: BioE 103 or BioE 300B or EE 122B.
Same as: BIOE 301C

BIOE 244. Advanced Frameworks and Approaches for Engineering Integrated Genetic Systems. 4 Units.

Concepts and techniques for the design and implementation of engineered genetic systems. Topics covered include the quantitative exploration of tools that support (a) molecular component engineering, (b) abstraction and composition of functional genetic devices, (c) use of control and dynamical systems theory in device and systems design, (d) treatment of molecular "noise", (e) integration of DNA-encoded programs within cellular chassis, (f) designing for evolution, and (g) the use of standards in measurement, genetic layout architecture, and data exchange. Prerequisites: CME104, CME106, CHEM 33, BIO41, BIO42, BIOE41, BIOE42, and BIOE44 (or equivalents), or permission of the instructors.

BIOE 311. Biophysics of Multi-cellular Systems and Amorphous Computing. 2-3 Units.

Provides an interdisciplinary perspective on the design, emergent behavior, and functionality of multi-cellular biological systems such as embryos, biofilms, and artificial tissues and their conceptual relationship to amorphous computers. Students discuss relevant literature and introduced to and apply pertinent mathematical and biophysical modeling approaches to various aspect multi-cellular systems, furthermore carry out real biology experiments over the web. Specific topics include: (Morphogen) gradients; reaction-diffusion systems (Turing patterns); visco-elastic aspects and forces in tissues; morphogenesis; coordinated gene expression, genetic oscillators and synchrony; genetic networks; self-organization, noise, robustness, and evolvability; game theory; emergent behavior; criticality; symmetries; scaling; fractals; agent based modeling. The course is geared towards a broadly interested graduate and advanced undergraduates audience such as from bio / applied physics, computer science, developmental and systems biology, and bio / tissue / mechanical / electrical engineering. Prerequisites: Previous knowledge in one programming language - ideally Matlab - is recommended; undergraduate students benefit from BIOE 41, BIOE 42, or equivalent.
Same as: BIOE 211, BIOPHYS 311, DBIO 211

BIOE 331. Protein Engineering. 3 Units.

The design and engineering of biomolecules emphasizing proteins, antibodies, and enzymes. Combinatorial and rational methodologies, protein structure and function, and biophysical analyses of modified biomolecules. Clinically relevant examples from the literature and biotech industry. Prerequisite: basic biochemistry. Winter, Cochran.
Same as: BIOE 231

BIOE 361. Biomaterials in Regenerative Medicine. 3 Units.

Materials design and engineering for regenerative medicine. How materials interact with cells through their micro- and nanostructure, mechanical properties, degradation characteristics, surface chemistry, and biochemistry. Examples include novel materials for drug and gene delivery, materials for stem cell proliferation and differentiation, and tissue engineering scaffolds. Prerequisites: undergraduate chemistry, and cell/molecular biology or biochemistry.
Same as: MATSCI 381

BIOE 371. Global Biodesign: Medical Technology in an International Context. 1-3 Unit.

(Same as OIT 587) Seminar examines the development and commercialization of medical technologies in the global setting focusing primarily on Europe, India and China. Faculty and guest speakers from industry and government discuss the status of the industry, as well as opportunities in and challenges to medical technology innovation unique to each geography. Topics related to development of technologies for bottom of the pyramid markets are also addressed. Students enrolling for 3 units are required to write and deliver a final paper.
Same as: MED 271

BIOE 377. Startup Garage: Testing and Launch. 4 Units.

STRAMGT 356/BIOE 376 teams that concluded at the end of fall quarter that their preliminary product or service and business model suggest a path to viability, may continue with STRAMGT 366/BIOE 377 in winter quarter. Teams develop more elaborate versions of their product/service and business model, perform a series of experiments to test key hypotheses about their product and business model, and prepare and present an investor pitch for a seed round of financing to a panel of seasoned investors and entrepreneurs.

BIOE 392. Directed Investigation. 1-10 Unit.

For Bioengineering graduate students. Previous work in 391 may be required for background; faculty sponsor required. May be repeated for credit.

BIOE 450. Advances in Biotechnology. 3 Units.

Guest academic and industrial speakers. Latest developments in fields such as bioenergy, green process technology, production of industrial chemicals from renewable resources, protein pharmaceutical production, industrial enzyme production, stem cell applications, medical diagnostics, and medical imaging. Biotechnology ethics, business and patenting issues, and entrepreneurship in biotechnology.
Same as: CHEMENG 450

BIOE 454. Synthetic Biology and Metabolic Engineering. 3 Units.

Principles for the design and optimization of new biological systems. Development of new enzymes, metabolic pathways, other metabolic systems, and communication systems among organisms. Example applications include the production of central metabolites, amino acids, pharmaceutical proteins, and isoprenoids. Economic challenges and quantitative assessment of metabolic performance. Pre- or corequisite: CHEMENG 355 or equivalent.
Same as: CHEMENG 454

BIOE 802. TGR Dissertation. 0 Units.

(Staff).