BIOMEDICAL ENGINEERING

580.110 (E,N)

MODELS FOR LIFE (2) Haase Freshmen BME Only     Perm. Req'd
Limit 6 per section   Freshman students taking physics or with physics AP credit only.  This course introduces biomedical engineering freshmen to an orderly method for analyzing and modeling biological systems, using only corequisite freshman mathematics and physics. Working with an instructor in small groups, students will learn to develop mathematical models of biological systems and design the experiments necessary to test these models. Then, they will conduct experiments in small teams and compare their results with those predicted by their models. Students will learn the introductory computer skills necessary to simulate their mathematical models, analyze their experimental data, and plot their results.

Sections 09-12 added 07/14/05

Lec.

Lab 01

02

03

04

05

06

07

08

09

10

11

12

Th 12

Th 8-10

Th 1-3

Th 1-3

Th 3-5

Th 5-7pm

F 8-10

F 2-4

F 2-4

Th 1-3

Th 3-5

Th 3-5

F 2-4

580.111 (E,N)

BME DESIGN GROUP (2) Allen
Perm. Req’d.   Limit 52
A two-semester course sequence where freshmen work with groups of BME upperclassmen mentors, and learn to use engineering principles to solve design problems that are biological, physiological, and/or medical. Freshmen are expected to use the informational content being taught in calculus, physics, and chemistry and apply this knowledge to the solution of practical problems encountered in biomedical engineering.

Sec. 01

Th 12

580.211 (E,N)

BME DESIGN GROUP (3) Allen
Sophomore-level version of 580.111 . Permission of course director required.

Sec. 01

Th 12

580.221 (E,N)

MOLECULES AND CELLS (4) Kuo Prereq: 030.101, 030.104 Limit 35 per section    An introduction to modern molecular and cellular biology in the context of potential biomedical engineering applications. Topics covered: reactions between molecules, including receptor-ligand and antigen-antibody specificity, protein structure, enzyme catalysis, genetic information, protein processing and secretion, cell physiology and cell functions. Advanced quantitative treatment including multistate kinetics, Monte Carlo simulations of biochemical reactions, and transport phenomena.

Secs. 04 & 06 canceled 09/02/05

Lec.

Sec. 01

02

03

04

05

06

TTh 3-4:30

F 9

F 10

F 11

F 12

F 1

F 2

580.311 (E,N)

BME DESIGN GROUP (3) Allen Perm. Req'd.     A two-semester course sequence where juniors and seniors work with a team leader and a group of BME freshmen and sophomores, to solve open-ended problems in biomedical engineering. Upperclassmen are expected to apply their general knowledge and experience, and their knowledge in their concentration area, to teach lower classmen and to generate the solution to practical problems encountered in biomedical engineering.

Sec. 01

TBA

580.410

BME TEACHING PRACTICUM (2) Haase     Senior biomedical engineering students will assist Models for Life course instructor in managing the laboratory component of the class.

Sec. 01

TBA

580.411 (E,N)

BME DESIGN GROUP (3) Allen Perm. Req'd.  Senior-level version of 580.311-312.

Sec. 01

TBA

580.413

DESIGN TEAM - TEAM LEADER (4) Allen   Perm. Req'd.     A two-semester sequence where leaders direct a team of undergraduate biomedical engineering students in a series of design problems. Prior design team experience and permission of course director required.

Sec. 01

TBA

580.421 (E,N)

PHYSIOLOGICAL FOUNDATIONS for BIOMEDICAL ENGINEERING I (4) Yue  Prereq: 580.221 & 580.222 Limit 25 per section
A quantitative, model-oriented investigation of the cardiovascular system. Topics are organized in three segments. (1) Molecular/cellular physiology, including electrical signaling and muscle contraction. (2) Systems cardiovascular physiology, emphasizing circuit-diagram analysis of hemodynamics. (3) Cardiovascular horizons and challenges for biomedical engineers, including heart failure and its investigation/treatment by computer simulation, by gene-array analysis, by stem-cell technology, and by mechanical devices (left-ventricular assist and total-heart replacement).

Lec.

Sec. 01

02

03

04

05

06

MW 4-5:30

T 2-3:30

T 2-3:30

T 4-5:30

T 4-5:30

T 7-8:30pm

T 7-8:30pm

580.423 (N)

LABORATORY IN PHYSIOLOGICAL FOUNDATIONS FOR BIOMEDICAL ENGINEERING I (2) Allen   Limit 38 per section   Coreq: 580.421 Priority to Junior BME majors   A two-semester laboratory course in which various physiological preparations are used as examples of problems of applying technology in biological systems. The emphasis in this course is on the design of experimental measurements and on physical models of biological systems.

Sec. 01

Lab

Sec. 02

Lab

Sec. 03

Lab

Sec. 04

Lab

Th 4

Th 9-1

Th 4

Th 1-5

F 9

F 9-1

F 9

F 1-5

580.439 (E,N)

MODELS OF THE NEURON (4) Young   Prereq: 110.301, 580.421-422 or equivalent     Single-neuron modeling, emphasizing the use of computational models as links between the properties of neurons at several levels of detail. Topics include thermodynamics of ion flow in aqueous environments, biology and biophysics of ion channels, gating, nonlinear dynamics as a way of studying the collective properties of channels in a membrane, synaptic transmission, integration of electrical activity in multi-compartment dendritic tree models, and properties of neural networks. Students will study the properties of computational models of neurons; graduate students will develop a neuron model using data from the literature.

Sec. 01

MW 8:30-10, T 9

580.440 (E,N)

CELL AND TISSUE ENGINEERING (3) Yarema/Elisseeff  Prereq: 580.221 Molecules and Cells (or equivalent); Sr. standing is strongly recommended. Note: students who have previously completed 580.442 Tissue Engineering may not enroll in this course.
This course will provide an overview of the major types of cells found in the human body with an emphasis on the fundamentals of stem cell biology. Cell properties and the interaction of cells with their surroundings, including the extracellular matrix and endothelium of blood vessels, will be covered along with modern molecular biology and metabolic engineering techniques used to manipulate these interactions. Tissue engineering will be introduced by reviewing tissue structure and function and the clinical need for tissue repair. An overview of scaffold chemistry and processing for tissue engineering will be reviewed and the application of tissue engineering to specialized tissues and organs will then be addressed in depth. Specific organ systems include skin, muscular skeletal system (vascular grafts, blood substitutions, cardiac patch, and heart valve), nervous system (peripheral and central nervous systems), liver, pancreas, and kidney. Course added 07/08/05

Sec. 01

MW 2-3:30

580.441 (E)

CELLULAR ENGINEERING (3) Yarema   Prereq: 580.421-422
Lectures provide an overview of molecular biology fundamentals, an extensivereview on extracellular matrix and basics of receptors, followed by topics on cell-cell and cell-matrix interactions at both the theoretical and experimental levels. Subsequent lectures will cover the effects of physical (shear, stress, strain), chemical (cytokins, growth factors), and electrical stimuli on cell function, emphasizing topics on gene regulation and signal transduction processes. Material on cell-cycle, apoptosis, metabolic engineering and gene therapy will also be incorporated into the course.
Co-listed as 540.441 Course canceled 07/08/05

Sec. 01

MW 2-3:30

580.451 (E,N)

CELLULAR AND TISSUE ENGINEERING LAB (2) Haase   Limit 8   Junior standing $100 lab fee
Cell and tissue engineering is a field that relies heavily on experimental techniques. This laboratory course will consist of three six experiments that will provide students with valuable hands-on experience in cell and tissue engineering. Students will learn basic cell culture procedures and specialized techniques related to faculty expertise in cell engineering, microfluidics, gene therapy, microfabrication and cell encapsulation. Experiments include the basics of cell culture techniques, gene transfection and metabolic engineering, basics of cell-substrate interactions I, cell-substrate interactions II, and cell encapsulation and gel contraction.

Sec. 01

T 1-5, F 1-5

580.471 (E,N)

PRINCIPLES OF DESIGN OF BIOMEDICAL INSTRUMENTATION (4) Thakor    Limit 12 per section   Prereq: 520.213-214, electronics lab or 580.470   Lab Fee: $125.00 This core design course will cover lectures and hands-on labs. The material covered will include fundamentals of biomedical sensors and instrumentation, FDA regulations, designing with electronics, biopotentials and ECG amplifier design, recording from heart, muscle, brain, etc., diagnostic and therapeutic devices (including pacemakers and defibrillators), applications in prosthetics and rehabilitation, and safety. The course includes extensive laboratory work involving circuits, electronics, sensor design and interface, and building complete biomedical instrumentation. The students will also carry out design challenge projects, individually or in teams (examples include "smart cane for blind," "computer interface for quadriplegic").

Lec.

Sec. 01

02

Th 4-6pm

F 9-1

F 1-5

580.495 (E)

MICROFABRICATION LAB (4) Wang/Andreou    Limit 9 per section Seniors only   Perm. Req’d.
This laboratory course introduces the principles used in the construction of microelectronic devices, sensors, and micromechanical structures. Students will work in the laboratory on the fabrication and testing of a device. Accompanying lecture material covers basic processing steps, design and analysis CAD tools, and national foundry services.
Co-listed with 530.495 and 520.495

Lec.

Sec. 01

02

03

Th 11

Th 1-4

F 9-12

F 1-4

580.501

FRESHMAN-SOPHOMORE RESEARCH OR PRACTICUM IN BIOMEDICAL ENGINEERING

TBA

580.511

FRESHMAN - SOPHOMORE INDEPENDENT STUDY IN BIOMEDICAL ENGINEERING

TBA

580.531

JUNIOR - SENIOR RESEARCH OR PRACTICUM IN BIOMEDICAL ENGINEERING

   TBA

580.541

JUNIOR - SENIOR INDEPENDENT STUDY IN BIOMEDICAL ENGINEERING

TBA

580.551

BME INTERNSHIP Course added 10/05/05

Sec. 01

TBA

580.571

HONORS INSTRUMENTATION (2) Thakor    Coreq: Enrollment in 580.471 Students enrolled jointly in 580.471 and 580.571 will not be required to take exams. Instead, students will develop a term paper and patent application and carry out a hands-on individual or team project throughout the semester and the intersession. Previous projects include design of EEG amplifier, voltage clamp and patch clamp, vision aid of blind, pacemaker/defibrillator, sleep detection and alert device, glucose sensor and regulation, temperature controller, eye movement detection and device control, ultrasound ranging and tissue properties, impedance plethysmography, lie detector, blood alcohol detector, pulse oximeter, etc.

Sec. 01

TBA

580.580

SENIOR DESIGN PROJECT (3) Allen Perm. Req'd.      Independent or team design project to design and evaluate a system. The design should demonstrate creative thinking and experimental skills, and must draw upon advanced topics of biomedical and traditional engineering.

Project proposals must be approved by October 3, 2005.  No proposals will be accepted after Oct 3, 2005

Sec. 01

TBA

580.603

TOPICS IN BIOMEDICAL ENGINEERING Winslow Open to PhD students in BME (Other PhD students by permission)
A series of informal seminars in which faculty of the department discuss their research interests; emphasis is on discussion between faculty and students. The purpose is to introduce graduate students to research opportunities. Course canceled 09/01/05

Sec. 01

M 3

580.617

ADVANCED TOPICS IN BIOMATERIALS Mao/Leong
This course reviews recent advances in biomaterials focusing on the design principles in polymeric materials and scaffolds. It will cover topics from molecular designs of polymeric biomaterials, materials surface engineering, processing of polymeric scaffolds, to manipulation of cellular behaviors through materials engineering.  Specific examples in cell and tissue engineering, and drug and gene delivery will be discussed.  Co-listed as 510.617

Sec. 01

MT 4-5:30

580.628

TOPICS IN SYSTEM NEUROSCIENCE Wang Prereq: Intro. to Neuroscience, 110.302, 520.214, 580.421 or equivalent
This course consists of weekly discussions of current literature in systems neuroscience. The selected readings will focus on neural mechanisms for perception, attention, motor behavior, learning, and memory, as studied using physiological, psychophysical, computational, and imaging techniques. Students are expected to give presentations and participate in discussions.

Sec. 01

W 5

580.639

MODELS OF THE NEURON Young  Prereq: 110.301-302, 580.421-422 or equivalent.  See description for 580.439.

Sec. 01

MW 8:30-10, T 9

580.640

CELL AND TISSUE ENGINEERING Yarema/Elisseeff   Course added 10/05/05

Sec. 01

MW 2-3:20

540.667

ENGINEERING MODELING AND ANALYSIS OF BIOLOGICAL SYSTEMS Paulaitis

Cross-listed with Biophysics, Chemical & Biomolecular Engineering, Civil Engineering, and Mechanical Engineering
Course added 09/02/05

Sec. 01

T 4-6pm, W 3-6pm

580.671

STATISTICAL MECHANICS IN BIOLOGICAL SYSTEMS Sun     Principles of statistical physics are discussed in the context of biological problems. After an introduction, topics covered will include equilibrium theory of liquids and polymers, theory of chemical reactions in complex environments, stochastic models, dynamics of membrane and channels, theory of biological motors, computer simulation of liquids and proteins.

Cross-listed with Mechanical Engineering 530.671

Sec. 01

MW 11-12:30

580.682

COMPUTATIONAL MODELS OF THE MYOCYTE Winslow    Course added 08/02/05

Sec. 01

MW 9:30-11

580.687

FOUNDATIONS OF COMPUTATIONAL BIOLOGY AND BIOINFORMATICS Sun    This course presents the fundamental concepts in equilibrium and non-equilibrium statistical mechanics and applies them to topics in modern molecular computational biology. Monte Carlo and statistical ensembles are presented. Field theories are introduced to describe the mechanics of membranes, cytoskeleton and biofluids. Kinetic theory, master equations and Fokker-Planck equations are discussed in the context of ion channels and molecular motors. 
Co-listed with 530.687 Course canceled 07/13/05

Sec. 01

MW 11-12:30

580.703

SEMINAR IN NEUROENGINEERING Thakor Weekly seminar in which faculty, staff, graduate students, and outside speakers discuss topics of current research interest in the area of neuroengineering.

Sec. 01

Th 2

580.748

MAGNETIC RESONANCE IN MEDICINE Osman Bottomley Prereq: 520.214 or 580.222  The course is an introduction to the field of magnetic resonance imaging. All of the basic principles of magnetic resonance imaging that are necessary to understand current literature are covered. Topics include: Bloch equations, imaging principles, excitation, image contrast mechanisms and instrumentation.

Sec. 01

Th 9-12 8:30-11:30

580.771

PRINCIPLES OF DESIGN OF BIOMEDICAL INSTRUMENTATION Thakor Limit: 12 Grad students only This course is designed for graduate students interested in learning basic biomedical instrumentation design concepets and translating these into advanced projects based on their research on current state-of-the-art. They will first gain the basic knowledge of instrumentation design, explore various applications, and critically gain hands-on experience through laboratory and projects. At the end of the course, students would get an excellent awareness of biological or clinical measurement techniques, design of sensors and electronics (or electro-mechanical/chemical, microprocessor system and their use). They will systematically learn to design instrumentation with a focus on the use of sensors, electronics to design a core instrumentation system such as an ECG amplifier. Armed with that knowledge and lab skills, students will be encouraged to discuss various advanced instrumentation applications, such as brain monitor, pacemaker/defibrillator, or prosthetics. Further, they will be "challenged" to come up with some novel design ideas and implement them in a semester-long design project. Students will take part in reading the literature, learing about the state-of-the-art through journal papers and patents, and discussing, critiquing, and improving on these ideas. Finally, they will be implementing a selected idea into a semester-long advanced group project. Course added 09/13/05

Sec. 01

Th 4-6pm

580.801

RESEARCH IN BIOMEDICAL ENGINEERING Prereq: Graduate Standing

TBA