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UNDERGRADUATE COURSES
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| BIM 1 |
Introduction to Biomedical Engineering |
Units: 1 |
| Lecture: 1 hour. No prerequisites. The primary fields of specialization in biomedical engineering are introduced. Fields include the following: (1) sensors, instrumentation, and signal processing; (2) orthopedic biomechanics; (3) whole body biomechanics; (4) imaging, and (5) biofluids and transport (6) cell and molecular engineering. |
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| BIM 20 |
Fundamentals of Bioengineering |
Units: 4 |
Lecture4 hours. Prerequisite: Physics 9B; Mathematics 21D. Basic principles of mass, energy and momentum conservation equations applied to solve problems in the biological and medical sciences
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| BIM 102 |
Quantitative Cell Biology |
Units: 4 |
Lecture/discussion: 4 hours. Prerequisite(s): Biological Sciences 2A, Physics 9B, Mathematics 22B, Chemistry 8B. Use of engineering principles to understand fundamental cell biology. Emphasis on physical concepts underlying cellular processes including protein trafficking, cell motility, cell division and cell adhesion. Current topics including cell biology of cancer and stem cells will be discussed.
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| BIM 105 |
Probability and Statistics for Biomedical Engineers |
Units: 4 |
Lecture/discussion: 4 hours. Prerequisite: Mathematics 21D. Concepts of probability, random variables and processes, and statistical analysis with applications to engineering problems in biomedical sciences. Contents include discrete and continuous random variables, probability distributions and models, hypothesis testing, statistical inference and stochastic processes. Emphasis on BME applications.
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| BIM 106 |
Biotransport Phenomena |
Units: 4 |
| Lecture: 4 hours. Prerequisite: Neurobiology, Physiology, and Behavior 101 or equivalent, Physics 9B, Mathematics 22B. Principles of heat and mass transfer with applications to biomedical systems; emphasis on mass transfer across cell membranes and the design and analysis of artificial human organs, and basic fluid transport. |
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| BIM 107 |
Mathematical Methods for Biological Systems |
Units: 4 |
| Lecture - 3 hours; discussion - 1 hour. Prerequisite: Mathematics 22A and 22B. Essential mathematical and numerical techniques for engineering problems in medicine and biology. Contents include matrix algebra, linear transforms, ordinary and partial differential equations, probability and stochastic processes, and an introduction to Monte Carlo and molecular dynamics simulations. |
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| BIM 108 |
Biomedical Signals and Control |
Units: 4 |
| Lecture: 2 hours, discussion: 2 hours. Prerequisites: MAT 22A, B; ENG 100 (can be taken concurrently). Systems and control theory are applied to bioengineering problems. Topics include modeling, linearization, transfer functions, Laplace and Fourier transforms, closed-loop systems, design and simulation of controllers dynamic behavior and control of first and second order processes, stability, bode design, and features of biological control systems. A simulation term project using MATLAB and an oral presentation are required. |
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| BIM 109 |
Biomaterials |
Units: 4 |
| Lecture: 3 hours; discussion: 1 hour. Prerequisite: course 106. Mechanical and chemical properties of metallic, ceramic, and polymeric implant materials. Properties of bones, joints, and blood vessels. Cellular response to implants, including inflammation, blood coagulation, and wound and fracture healing. Biocompatibility of orthopaedic and cardiovascular materials. |
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| BIM 110 A, B |
Capstone Biomedical Engineering Design |
Units: 2 - 2 |
| Laboratory: 3 hours; lecture/discussion: 1 hour. Prerequisite: courses 107, 108, 109. Application of bioengineering theory and experimental analysis culminating in the design of a unique solution to a problem. The design may be geared towards current applications in applied biomechanics, biotechnology or medical technology. (Deferred grading only, pending completion of sequence.) |
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| BIM 111 |
Biomedical Instrumentation Laboratory |
Units: 4 |
| Lecture: 1 hour, lab: 4 hours. Prerequisites: BIS 1A; BIM 107; STA 120, 131A, or 130A; ENG 100. Basic biomedical signals and sensors are presented. Other topics include analog and digital records using electronic, hydrodynamic, and optical sensors, and measurements made at cellular, tissue and whole organism level. Experiments include genomics technology, nerve action, electrocardiography, mechanics of muscle, membranes, and noninvasive diagnostics in humans. Analysis will stress statistical principles and possible errors in experimental design. |
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| BIM 116 |
Research and Design Methods for Biomedical Engineers |
Units: 5 |
| Lecture-2 hours; Problem Solving-3 hours; Writing. Prerequisite: Biological Sciences 1A, Mathematics 22B, Physics 9C. Introduction to the engineering research and design process as applied to biomedical devices and therapeutics. Small group design projects and presentations in interdiscplinary topics relating biomedical engineering to biology and medicine. |
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| BIM 117 |
Analysis of Molecular and Cellular Networks |
Units: 4 |
| Lecture: 3 hours; discussion: 1 hour. Prerequisite: Biological Sciences 1A and Mathematics 22B. Network themes in biology, emphasizing metabolic, genetic, and developmental networks. Mathematical and computational methods for analysis of such networks. Elucidation of design principles in natural networks. Engineering and ethical issues in the design of synthetic networks. |
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| BIM 118 |
Microelectromechanical Systems |
Units: 4 |
| Lecture-3 hours; Lab-2 hours. Prerequisite(s): Engineering 100, Engineering 35, Engineering 103 or Course 106, Chemistry 2A; recommend Engineering 104. Theory and practice of MEMS, including fundamentals of microfabrication techniques, microscale sensing and actuating principles, and microsystem designs and implementations. Demonstration laboratory sections, integrated with lectures, will be conducted weekly inside the North California Nanofabrication Center. |
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| BIM 126 |
Tissue Mechanics |
Units: 3 |
| Lecture--2 hours; laboratory/discussion--3 hours. Prerequisite: Exercise Science 103 and/or Engineering 45 and/or consent of instructor. Structural and mechanical properties of biological tissues, including bone, cartilage, ligaments, tendons, nerves, and skeletal muscle. |
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| BIM 140 |
Protein Engineering |
Units: 4 |
| Lecture: 3 hours, discussion: 1 hour. Prerequisites: BIS 1A, CHE 8B. Protein structure and function are described, together with BME tools and strategies. Topics include modern methods for designing, producing, and characterizing novel proteins and peptides, design strategies, computer modeling, heterologous expression, in vitro mutagenesis, protein crystallography, spectroscopic and calorimetric methods for characterization, and other techniques. |
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| BIM 141 |
Cell and Tissue Mechanics |
Units: 4 |
| Lecture: 3 hours, discussion: 1 hour. Prerequisites: Physics 9C; ENG 35; NPB 101. Mechanical properties that govern blood flow in the microcirculation and cell adhesion and motility are evaluated. Topics include constitutive equations of vasculature, tissue, and blood, blood rheology and viscoelasticity, biophysical aspects of cell migration, mitosis, apoptosis, and differentiation, red and white blood cell mechanics, remodeling of blood vessels in disease and engineering of blood vessels and cells. The design of functional tissue units is presented with clinical applications. |
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| BIM 142 |
Biomedical Imaging: Basic Principles and Practice |
Units: 4 |
| Lecture: 3 hours; term paper. Prerequisite: Course 108 (may be taken concurrently), Physics 9D and Mathematics 22B. Basic physics, engineering principles, and applications of biomedical imaging techniques including x-ray imaging, computed tomography, magnetic resonance imaging, ultrasound and nuclear imaging. |
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| BIM 151 |
Mechanics of DNA |
Units: 3 |
| Lecture—3 hours. Prerequisite: Biological Sciences 1A and Mathematics 22B. Structural, mechanical and dynamic properties of DNA. Topics include DNA structures and their mechanical properties, in vivo topological constraints on DNA, mechanical and thermodynamic equilibria, DNA dynamics, and their roles in normal and pathological biological processes. Offered in alternate years. |
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| BIM 161 A |
Biomolecular Engineering |
Units: 4 |
| Lecture--3 hours; discussion--1 hour. Prerequisite: Biological Sciences 1A, Chemistry 8B; upper division standing. Introduction to the basic concepts and techniques of biomolecular engineering such as recombinant DNA technology, protein engineering, and molecular diagnostics. |
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| BIM 161 L |
Biomolecular Engineering Laboratory |
Units: 2 |
| Laboratory/discussion--6 hours. Prerequisite: course 161A; upper division Biomedical Engineering major. Introduction to the basic techniques in biomolecular engineering. Laboratory and discussion sessions will cover basic techniques in DNA cloning, bacterial cell culture, protein expression, and data analysis. GE Credit: SciEng. |
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| BIM 161 S |
Biomolecular Engineering: Brief Course |
Unit: 1 |
Lecture - 1 hour. Prerequisite: Biological Sciences 1A; Chemistry 8B; course 161L concurrently. Basic concepts and techniques in biomolecular analysis, recombinant DNA technology, and protein purification
and analysis. Not open for credit to students who have completed Biomedical Engineering 161A. Summer Session only.
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| BIM 162 |
Quantitative Concepts in Biomolecular Engineering |
Units: 4 |
Lecture - 4 hours. Prerequisite: Mathematics 22B and Physics 9D. Introduction to fundamental physical mechanisms governing structure and function of biomacromolecules. Emphasis on a quantitative understanding of the nano- to microscale biomechanics of interactions between and within individual molecules, as well as of their assemblies, in particular membranes. Offered in alternate years.
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| BIM 173 |
Cell and Tissue Engineering |
Units: 4 |
| Lecture/discussion: 4 hours. Prerequisite(s): BIM 106 and BIM 109. Engineering principles to direct cell and tissue behavior and formation. Cell sourcing, controlled delivery of macromolecules, transport within and around biomaterials, bioreactor design, tissue design criteria and outcomes assessment. |
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| BIM 189 |
Topics in Biomedical Engineering |
Units: 1 - 5 |
| Prerequisite: consent of instructor. Topics in Biomedical Engineering. (A) Cellular and Molecular Engineering (B) Biomedical Imaging (C) Biomedical Engineering. May be repeated if topic differs. Not offered every year. |
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| BIM 190 A |
Upper Division Seminar in Biomedical Engineering |
Units: 1 |
| Seminar--1 hour. Prerequisite: upper division standing. In depth examination of research topics in a small group setting. Question and answer session with faculty members. May be repeated for credit. (P/NP grading only.) |
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| BIM 199 |
Special Study for Advanced Undergraduates |
Units: 1 - 5 |
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GRADUATE COURSES
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| BIM 202 |
Cell and Molecular Biology for Engineers |
Units: 4 |
| This course is geared to prepare biomedical engineers or applied science engineers for research and critical review in the field of cell and molecular biology. Engineering students are expected to have completed either a lower or upper division course in eukaryotic cell biology. This course will emphasize biophysical and engineering concepts intrinsic to specific topics including: receptor-ligand dynamics in cell signaling and function, cell motility, DNA replication and RNA processing, cellular energetics and protein sorting. We will also introduce modern topics in bioinformatics and proteomics. Includes laboratory component. |
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| BIM 204 |
Physiology for Bioengineers |
Units: 5 |
Basic human physiology of the nervous, muscular, cardiovascular, respiratory, and renal systems and their interactions; Emphasis on the physical and engineering principles governing these systems, including control and transport processes, fluid dynamics, and electrochemistry.
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| BIM 209 |
Scientific Integrity for Biomedical Engineers |
Units: 2 |
| Scientific integrity and ethics for biomedical engineers, with emphasis and discussion on mentoring, authorship and peer review, use of humans and animals in biomedical research, conflict of interest, intellectual property, genetic technology and scientific record keeping. |
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| BIM 210 |
Introduction to Biomaterials |
Units: 4 |
| Mechanical and atomic properties of metallic, ceramic, and polymeric of implant materials; corrosion, degradation, and failure of implants; inflammation, wound and fracture healing, blood coagulation; properties of bones, joints, and blood vessels; biocompatibility of orthopedic and cardiovascular materials. |
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| BIM 211 |
Design of Polymeric Biomaterials and Biological Interfaces |
Units: 4 |
| Design, selection and application of polymeric biomaterials. Integration of the principles of polymer science, surface science, materials science and biology. |
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| BIM 212 |
Biomedical Heat and Mass Transfer |
Units: 4 |
| Application of principles of heat and mass transfer to biomedical systems; related to heat exchange between the biomedical system and its environment, mass transfer across cell membranes and the design and analysis of artificial human organs. |
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| BIM 213 |
Principles and Applications of Biological Sensors |
Units: 4 |
| Biological sensors based on principles of electrochemical, optical and affinity detection. Methods for integration of sensing elements (e.g. enzymes) into biosensors and miniaturization of biosensors. |
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| BIM 214 |
Continuum Cell Biomechanics |
Units: 4 |
| Mechanical properties that govern blood flow in the microcirculation and cell adhesion and motility. Constitutive equations of vasculature tissue and blood. Blood rheology and viscoelasticity. Red and white blood cell mechanics. Remodeling of blood vessels in disease and engineering of blood vessels and cells. |
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| BIM 215 |
Biomedical Fluid Mechanics and Transport |
Units: 4 |
| Application of fluid mechanics and transport to biomedical systems. Flow in normal physiological function and pathological conditions. Topics include circulatory and respiratory flows, effect of flow on cellular processes, transport in the arterial wall and in tumors, and tissue engineering. |
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| BIM 216 |
Advanced Cellular Engineering |
Units: 4 |
| This course follows up on Cell Continuum Mechanics and focuses on advanced research strategies and technologies used in the study of immune function and inflammation. This includes static and dynamic measurements of stress, strain, and molecular scale forces in blood and vascular cells, as well as genetic approaches to the study of disease. |
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| BIM 218 |
Microsciences |
Units: 4 |
| Introduction to the theory of physical and chemical principles at the microscale. Scale effects, surface tension, microfluidic mechanics, micromechanical properties, intermolecular interactions and micro tribology. |
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| BIM 223 |
Multibody Dynamics |
Units: 4 |
| Spatial kinematics, screw theory, spatial mechanisms analysis and synthesis, robot kinematics and dynamics, robot workspace, path planning, robot programming, real-time architecture and software implementation. |
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| BIM 225 |
Spatial Kinematics and Robotics |
Units: 4 |
| Spatial kinematics, screw theory, spatial mechanisms analysis and synthesis, robot kinematics and dynamics, robot workspace, path planning, robot programming, real-time architecture and software implementation. |
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| BIM 227 |
Research Techniques in Biomechanics |
Units: 4 |
| Experimental techniques for biomechanical analysis of human movement are examined. Techniques evaluated include data acquisition and analysis by computer, force platform analysis, strength assessment, planar and three-dimensional videography, data reduction and smoothing, body segment parameter determination, electromyography, and biomechanical modeling. |
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| BIM 228 |
Skeletal Muscle Mechanics |
Units: 4 |
| Form, Function, Adaptability Basic structure and function of skeletal muscle is examined at the microscopic and macroscopic level. Muscle adaptation in response to aging, disease, injury, exercise, and disuse. Analytic models of muscle function are discussed. |
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| BIM 231 |
Musculo-Skeletal Biomechanics |
Units: 3 |
| Mechanics of skeletal muscle and mechanical models of muscle, solution of the inverse dynamics problem, theoretical and experimental methods of kinematic and kinetic analysis, computation of intersegmental load and muscle forces, applications to gait analysis and sports biomechanics. |
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| BIM 232 |
Skeletal Tissue Mechanics |
Units: 4 |
| An overview of the mechanical properties of the various tissues in the musculoskeletal system, the relationship of these properties to anatomic and histologic structure, and the changes in these properties caused by aging and disuse. The tissues to be covered include bone, cartilage and synovial fluid, ligament and tendon. |
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| BIM 239 |
Advanced Finite Elements and Optimization |
Units: 4 |
| Introduction to advanced finite elements and design optimization methods, with application to modeling of complex mechanical, aerospace and biomedical systems. Application of states of the art in finite elements in optimum design of components under realistic loading conditions and constraints. Offered in alternate years. |
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| BIM 240 |
Computational Methods in Nonlinear Mechanics |
Units: 4 |
| Deformation of the solids and the motion of fluids are treated with state-of-the-art computational methods. Numerical treatment of nonlinear dynamics; classification of coupled problems; applications of finite element methods to mechanical, aeronautical, and biological systems. |
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| BIM 241 |
Introduction to MRI |
Units: 3 |
| Introduction to equipment, methods, medical applications of MRI. Lectures review basic, advanced pulse sequences, image reconstruction, display and technology and how these are applied clinically. Format: 35mm slide presentation. Lecture complements a more technical course (BIM 246 can be taken concurrently). |
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| BIM 242 |
Introduction to Biomedical Imaging |
Units: 4 |
| Basic physics and engineering principles of image science. Emphasis on ionizing and nonionizing radiation production and interactions with the body and detectors. Major imaging systems: radiography, computed tomogra-phy, magnetic resonance, ultrasound, and optical microscopy. |
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| BIM 243 |
Radiation Detectors for Biomedical Applications |
Units: 4 |
| Radiation detectors and sensors used for biomedical applications with emphasis on operating principles for gas, semiconductor and scintillation detectors. Covers detectors for optical photons, x-rays, gamma rays and charged particles. Focus on technologies used in a broad range of biomedical instrumentation, especially those relevant to biomedical imaging. |
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| BIM 246 |
Magnetic Resonance Technology |
Units: 3 |
| Course covers MRI technology at an advanced level with emphasis on mathematical descriptions and problem solving. Topics include spin dynamics, signal generation, image reconstruction, pulse sequences, biophysical basis of T1, T2, RF, gradient coil design, signal to noise, image artifacts. |
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| BIM 247 |
Current Concepts in Magnetic Resonance Imaging I |
Units: 3 |
| Covers modern pulse sequences, pulse sequence options, and biomedical/industrial applications: Velocity encoded phase imaging and angiography, Echo planar imaging, spiral imaging, computer simulation of MRI, fast spin echo, others. |
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| BIM 248 |
Current Concepts in Magnetic Resonance Imaging II |
Units: 3 |
| Continuation of lecture coverage of modern pulse sequences, pulse sequence options, and biomedical/industrial applications: Control of tissue contrast by magnetization refocusing and spoiling, RF pulse design, Diffusion and perfusion imaging, image artifact reduction methods, others. |
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| BIM 250 |
Mathematical Methods of Biomedical Imaging |
Units: 4 |
| Advanced mathematical techniques for biomedical engineering students with emphasis on imaging systems. Matrices and vector spaces, Fourier analysis, integral transforms, signal representations, probability and random processes. (Offered occasionally) |
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| BIM 251 |
Medical Image Analysis |
Units: 4 |
| Techniques are presented for assessing the performance of medical imaging systems. We review principles of digital image formation and processing. We then describe measurements that summarize diagnostic image quality and the performance of human observers viewing those images. Finally, we define an ideal observer and other mathematical observers that may be used to predict performance from system design features. Students will obtain hands-on experience in computer vision by completing individual Matlab assignments that they select from topics in the course. |
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| BIM 252 |
Computational Methods in Biomedical Imaging |
Units: 4 |
| Analytic tomographic reconstruction from projections in 2D and 3D; model-based image reconstruction methods; maximum likelihood and Bayesian methods; applications to CT, PET, and SPECT. |
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| BIM 270 |
Biochemical Systems Theory |
Units: 4 |
| Systems biology at the biochemical level. Mathematical and computational methods emphasizing nonlinear representation, dynamics, robustness, and optimization. Case studies of signal-transduction cascades, metabolic networks and regulatory mechanisms. Focus on formulating and answering fundamental questions concerning network function, design, and evolution. |
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| BIM 271 |
Gene Circuit Theory |
Units: 4 |
| Analysis, design, and construction of gene circuits. Modeling strategies, elements of design, and methods for studying variations in design. Case studies involving prokaryotic gene circuits to illustrate natural selection, discovery of design principles, and construction of circuits for engineering objectives. |
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| BIM 272 |
Tissue Engineering |
Units: 3 |
| Based on morphogenetic signals, responding stem cells and extracellular matrix scaffolding. Design and development of tissues for functional restoration of various organs damaged/lost due to cancer, disease and trauma. Fundamentals of morphogenetic signals, responding stem cells and extracellular matrix scaffolding. |
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| BIM 273 |
Integrative Tissue Engineering and Technologies |
Units: 4 |
| Engineering principles to direct cell and tissue behavior and formation. Contents include controlled delivery of macromolecules, transport within and around biomaterials, examination of mechanical forces of engineered constructs, and current experimental techniques used in the field. |
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| BIM 281 |
Acquisition and Analysis of Biomedical Signals |
Units: 4 |
| This lecture/laboratory course introduces basic concepts associated with digital signal recording and analysis. Lectures introduce concepts of sampling; standard probability distributions; statistical error analysis related to experimental design; correlation, Fourier, and spectral analyses applied to signal and image processing. Labs are designed to provide hands-on experience with digital oscilloscopes, waveform generators, optical microscopy, Matlab- and Labview-based software applications. |
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| BIM 282 |
Biomedical Signal Processing |
Units: 4 |
| Digital filter design and classical and modern spectral estimation tools will be applied to the estimation of parameters in biomedical signal recordings. Examples from biological signals and medical images will be used to illustrate difficult problems. |
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| BIM 283 |
Introduction to Ultrasound Imaging |
Units: 4 |
| Theory and application of medical ultrasound with an emphasis on the design of array-based medical ultrasound systems. Based on acoustics and optical diffraction theory, ultrasound beamforming arrays are designed to maximize spatial resolution. Physical principles of diagnostic and therapeutic protocol, biological effects of ultrasound. (proposed course) |
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| BIM 284 |
Mathematical Methods for Biomedical Engineers |
Units: 4 |
Theoretical applications of linear systems, ordinary and partial differential equations, and probability theory and random processes that describe biological systems and instruments that measure them. Students will be introduced to numerical solution techniques in MATLAB.
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| BIM 286 |
Nuclear Imaging in Medicine and Biology |
Units: 4 |
| Radioactive decay, interaction of radiation with matter, radionuclide production, radiation detection, digital autoradiography, gamma camera imaging, single photon emission computed tomography, positron emission tomography and applications of these techniques in biology and medicine. |
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| BIM 289 A |
Selected topics in Bioinstrumentation and Signal Processing |
Units: 1-5 |
| BIM 289 B |
Selected topics in Biomedical Imaging |
Units: 1-5 |
| BIM 289 C |
Selected topics in Cell and Molecular Engineering; Biofluids and Transport |
Units: 1-5 |
| BIM 289 D |
Selected topics in Orthopedic Biomechanics |
Units: 1-5 |
| BIM 289 E |
Selected topics in Analysis of Human Movement |
Units: 1-5 |
| BIM 290 |
Graduate Seminar in Biomedical Engineering |
Units: 1 - 1 |
| BIM 290 C |
Graduate Research Conference |
Units: 1 |
| BIM 299 |
Graduate Research |
Units: 1 - 12 |
