GRADUATE COURSES
Click on the course name to view the syllabus.
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| BIM 202 |
Cell and Molecular Biology for Engineers |
Units: 4 |
| Preparation for research and
critical review in the field of cell and molecular biology for biomedical or
applied science engineers. Emphasis on 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. Modern topics in bioinformatics and
proteomics. |
|
| 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. |
|
| 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. |
|
| 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. Offered in
alternate years |
|
| 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. |
|
| 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. Offered in alternate
years. |
|
| 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. |
|
| 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. |
|
| 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. |
|
| BIM 216 |
Advanced Cellular Engineering |
Units: 4 |
| Advanced research strategies and
technologies used in the study of immune function and inflammation. 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. |
|
| BIM 217 |
Mechanobiology in Health and Disease |
Units: 4 |
| Principles by which
biomechanical forces affect cell and tissue function to impact human health
and disease. Emphasis on cardiovascular system: structure and function,
biofluid mechanics and mechanotransduction, disease mechanisms and research
methods. Cartilage, bone and other systems; current topics discussed. |
|
| 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. |
|
| BIM 222 |
Cytoskeletal Mechanics |
Units: 4 |
| Current topics in cytoskeletal
mechanics including physical properties of the cytoskeleton and motor
proteins, molecular force sensor and generator, cytoskeletal regulation of
cell motility and adhesion. Offered in alternate years. (Proposed Course) |
|
| BIM 223 |
Multibody Dynamics |
Units: 4 |
| Coupled rigid-body
kinematics/dynamics; reference frames; vector differentiation; configuration
and motion constraints; holonomicity; generalized speeds; partial velocities;
mass; inertia tensor/theorems; angular momentum; generalized forces;
comparing Newton/Euler, Lagrange's, Kane's methods; computer-aided equation
derivation; orientation; Euler; Rodrigues parameters. |
|
| 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. Offered in alternate years |
|
| 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. |
|
| 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. |
|
| 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. |
|
| 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. |
|
| 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. |
|
| 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. Offered in alternate years |
|
| 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). |
|
| 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. |
|
| BIM 243 |
Radiation Detectors for Biomedical Applications |
Units: 4 |
| Radiation detectors and sensors
used for biomedical applications. Emphasis on radiation interactions,
detection, measurement and use of radiation sensors for imaging. Operating
principles of gas, semiconductor, and scintillation detectors |
|
| 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. |
|
| 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. |
|
| 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. |
|
| 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) |
|
| BIM 251 |
Medical Image Analysis |
Units: 4 |
| Techniques for assessing the
performance of medical imaging systems. Principles of digital image formation
and processing. Measurements that summarize diagnostic image quality and the
performance of human observers viewing those images. Definition of ideal
observer and other mathematical observers that may be used to predict
performance from system design features. |
|
| 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. |
|
| BIM 255 |
Biophotonics in Medicine and the Life Sciences |
Units: 3 |
| Introduction to the science and
technology of biomedical optics and photonics, with an overview of
applications in medicine and the life sciences. Emphasis on research
supported by the NSF Center for Biophotonics at UC Davis Medical Center.
(Proposed course) |
|
| BIM 262 |
Cell and Molecular Biophysics for Bioengineers |
Units: 4 |
| Introduction to fundamental
mechanisms governing the structure, function, and assembly of
bio-macromolecules. Emphasis is on a quantitative understanding of the
nano-to-microscale interactions between and within individual molecules, as
well as of their assemblies, in particular membranes. (Proposed Course) |
|
| 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. |
|
| 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. |
|
| 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. |
|
| 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. |
|
| BIM 281 |
Acquisition and Analysis of Biomedical Signals |
Units: 4 |
| Basic concepts of digital signal
recording and analysis; sampling; empirical modeling; Fourier analysis,
random processes, spectral analysis, and correlation applied to biomedical
signals. |
|
| BIM 282 |
Biomedical Signal Processing |
Units: 4 |
| Characterization and analysis of
continuous- and discrete-time signals from linear systems. Examples drawn
from physiology illustrate the use of Laplace, Z, and Fourier transforms to
model biological and bioengineered systems and instruments. Filter design and
stochastic signal modeling. Genomic signal processing. |
|
| 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) |
|
| 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. |
|
| BIM 285 |
Computational Modeling in Biology and Immunology |
Units: 4 |
| Essential computational modeling
techniques in biology and immunology. Emphasis on applications of Monte Carlo
methods in studying immune recognition and response. Introduction to Brownian
dynamics and Molecular dynamics simulations as applied in molecular level
diffusion and interactions. |
|
| 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. |
|
| BIM 289 A |
Selected topics in Cell and Molecular Systems
Engineering |
Units: 1-5 |
| BIM 289 B |
Selected topics in Biomedical Imaging |
Units: 1-5 |
| BIM 289 C |
Selected topics in Computational Bioengineering |
Units: 1-5 |
| BIM 289 D |
Selected topics in Cell & Tissue Mechanics |
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 |
| BIM 290 C |
Graduate Research Conference |
Units: 1 |
| BIM 299 |
Graduate Research |
Units: 1 - 12 |
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