BMEN E1001x Engineering in medicine 3 pts. The present and historical role of engineering in medicine and health care delivery. Engineering approaches to understanding organismic and cellular function in living systems. Engineering in the diagnosis and treatment of disease. Medical imaging, medical devices: diagnostic and surgical instruments, drug delivery systems, prostheses, artificial organs. Medical informatics and organization of the health care system. Current trends in biomedical engineering research.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E1001
BMEN 1001	42156 001	TBA		10

BMEN E2300x or y Biomechanics track Rising juniors are required to register for this course in the spring of their sophomore year if they choose the biomechanics track.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E2300
BMEN 2300	43003 001	TBA		9

BMEN E2400x or y Biomedical imaging track Rising juniors are required to register for this course in the spring of their sophomore year if they choose the biomedical imaging track.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E2400
BMEN 2400	46306 001	TBA		3

BMEN E2500x or y Cellular and tissue engineering track Rising juniors are required to register for this course in the spring of their sophomore year if they choose the cell and tissue engineering track.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E2500
BMEN 2500	46953 001	TBA		20

ECBM E3060x Introduction to genomic information science and technology 3 pts.
Introduction to the information system paradigm of molecular biology. Representation, organization, structure, function and manipulation of the biomolecular sequences of nucleic acids and proteins. The role of enzymes and gene regulatory elements in natural biological functions as well as in biotechnology and genetic engineering. Recombination and other macromolecular processes viewed as mathematical operations with simulation and visualization using simple computer programming. This course shares lectures with ECBM E4060, but the work requirements differ somewhat.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: ECBM E3060
ECBM 3060	71648 001	TBA		3

BMEN E3150y The cell as a machine 3 pts. Prerequisites: MATH V1101 or equivalent Corequisites: One semester of BIOL C2005 or BIOC C3501, and one semester of PHYS C1401 or equivalent Cells as complex micron-sized machines, basic physical aspects of cell components (diffusion, mechanics, electrostatics, hydrophobicity), energy transduction (motors, transporters, chaperones, synthesis complexes), basic cell functions. Biophysical principles, feedback controls for robust cell function, adaptation to environmental perturbations.

BMEN E3320y Fluid biomechanics 3 pts. Prerequisites: MATH E1210 The principles of continuum mechanics as applied to biological fluid flows and transport. Course covers continuum formulations of basic conservation laws, Navier-Stokes equations, mechanics of arterial and venous blood floblood rheology and non-Newtonian properties, flow and transport in the microcirculation, oxygen diffusion, capillary filtration.

BMCH E3500y Biological transport and rate processes 3 pts. Prerequisites: CHEM C3443, MATH E1210 Corequisites: BIOL C2005 Convective and diffusive movement and reaction of molecules in biological systems. Kinetics of homogeneous and heterogeneous reactions in biological environments. Mechanisms and models of transport across membranes. Convective diffusion with and without chemical reaction. Diffusion in restricted spaces. Irreversible thermodynamic approaches to transport and reaction in biological systems.

BMEN E3810y Biomedical engineering laboratory, I 3 pts. Statistical analysis of experimental measurements: normal distribution, test of significance, linear regression, correlation, error analysis and propagation. MATLAB programming, EKG signal acquisition and processing, microscopy, cell counting and scaffold encapsulation, mechanical testing of linear and nonlinear biomaterials.

BMEN E3820x Biomedical engineering laboratory, II 3 pts. Statistical analysis of experimental measurements: analysis of variance, power analysis. Circuit implementation of nerve conduction, alginate bead formation, mechanical testing and optical strain analysis, galvanotaxis, image segmentation and analysis of cells, computer aided design, library resources.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E3820
BMEN 3820	47553 001	TBA		15 / 15
BMEN 3820	63252 002	TBA		16 / 15

BMEN E3830y Biomedical engineering laboratory, III 3 pts. Experimental design. Cell adhesion, membrane transport, osmosis, ultrasound, design of cell encapsulation and drug delivery system, respiratory impedance. Selected clinical demonstrations: body compositions, magnetic resonance imaging, echocardiography, blood pressure.

BMEN E3910x-E3920y Biomedical engineering design, I and II 4 pts. A two-semester design sequence to be taken in the senior year. Elements of the design process, with specific applications to biomedical engineering: concept formulation, systems synthesis, design analysis, optimization, biocompatibility, impact on patient health and comfort, health care costs, regulatory issues, and medical ethics. Selection and execution of a project involving the design of an actual engineering device or system. Introduction to entrepreneurship, biomedical start-ups, and venture capital. Semester I: statistical analysis of detection/classification systems (receiver operation characteristic analysis, logistic regression), development of design prototype, need, approach, benefits and competition analysis. Semester II: spiral develop process and testing, iteration and refinement of the initial design/prototype and business plan development.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E3910
BMEN 3910	66656 001	TBA		50

BMEN E3998x or y Projects In biomedical engineering 1-3 pts. Independent projects involving experimental, theoretical, computational, or engineering design work. May be repeated, but no more than 3 points of this or any other projects or research course may be counted toward the technical elective degree requirements as engineering technical electives.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E3998
BMEN 3998	67402 001	TBA		0
BMEN 3998	67803 002	TBA		0
BMEN 3998	11751 003	TBA		0
BMEN 3998	26536 004	TBA		0
BMEN 3998	27203 005	TBA		0
BMEN 3998	63007 006	TBA		0
BMEN 3998	41300 007	TBA		1
BMEN 3998	42303 008	TBA		0
BMEN 3998	45799 009	TBA		0
BMEN 3998	47051 010	TBA		0
BMEN 3998	48003 011	TBA		0
BMEN 3998	51002 012	TBA		2
BMEN 3998	52050 013	TBA		0
BMEN 3998	53249 014	TBA		0
BMEN 3998	56152 015	TBA		0
BMEN 3998	57402 016	TBA		1
BMEN 3998	60849 017	TBA		0
BMEN 3998	62002 018	TBA		0
BMEN 3998	63151 019	TBA		0
BMEN 3998	42658 020	TBA		0
BMEN 3998	47053 021	TBA		0
BMEN 3998	48406 022	TBA		0

BMEN E4000x Special topics: Reproductive Bioengineering 3 pts. Prerequisites: Mechanics ENME E3105, Transport BMCH E3500, or equivalent or permision of instructor

Definition: The reproductive system is composed of complex sub-systems, which are driven by sophisticated biochemical processes, while their performance is controlled by the physical laws that exist on earth (e.g., Newton's laws). Accordingly, understanding of any physiological phenomena, as well as the development of pathologies, requires comprehensive evaluation of the bio-physical and bio-engineering aspects of reproduction in concomitant with the biological and clinical features. Reproductive Bioengineering is a general phrase for any structural, mechanical, electrical, or other physical component involved in the functional processes of the reproductive system.

Objective: Exposure to bio-physical and bio-engineering aspects of human reproduction in concomitant with biological and clinical features. The male and female reproductive systems, as well as the reproduction process, are treated from an engineering perspective. The course content is designed for the graduate level including undergraduate students at their final year and professionals who are interested in this field.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E4000
BMEN 4000	68048 001	TBA		5

BMEN E4001x Quantitative Physiology, I: Cells and Molecules 3 pts. Prerequisites: CHEM C3443 or equivalent; BIOL C2005 Physiological systems at the cellular and molecular level are examined in a highly quantitative context. Topics include chemical kinetics, molecular binding and enzymatic processes, molecular motors, biological membranes, and muscles.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E4001
BMEN 4001	68454 001	TBA		55 / 55
BMEN 4001	22257 002	TBA		3 / 55

BMEN E4002y Quantitative Physiology, II: Organ Systems 3 pts. Prerequisites or corequisites: CHEM C3443 or equivalent; BIOL C2005-C2006. Students are introduced to a quantitative, engineering approach to cellular biology and mammalian physiology. Beginning with biological issues related to the cell, the course progresses to considerations of the major physiological systems of the human body (nervous, circulatory, respiratory, renal).

BMEN E4010y Ethics for Biomedical Engineers 2 pts. Prerequisite: senior status in biomedical engineering or the instructor's permission. Covers a wide range of ethicical issues expected to confront graduates as they enter the biotechnology industry, research, or medical careers. Topics vary and incorporate guest speakers from Physicians and Surgeons, Columbia Law School, Columbia College, and local industry.

BMEB W4011x Computational Neuroscience I: Circuits in the Brain 3 pts. Prerequisites: ELEN E3801 or BIOL W3004 Biophysics of computation, the Hodgkin-Huxley neuron, modeling and analysis of ion channels, basic dendritic integration. Integrate-and-fire and other spiking neuron models, stimulus representation and the neural code, time encoding and stimulus recovery, information representation with time encoding machines, fast algorithms for stimulus recovery, elements of spike processing and neural computation. Modeling synapses and synaptic transmission, synaptic plasticity and learning algorithms. Projects in Matlab.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEB W4011
BMEB 4011	88250 001	TBA		9

ECBM E4060x Introduction To Genomic Information 3 pts. Prerequisites: None. Introduction to the information system paradigm of molecular biology. Representation, organization, structure, function and manipulation of the biomolecular sequence of nucleic acids and proteins. The role of enzymes and gene regulatory elements in natural biological functions as well as in biotechnology and genetic engineering. Recombination and other macromolecular processes viewed as mathematical operations with simulation and visualization using simple computer programming.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: ECBM E4060
ECBM 4060	91096 001	TBA		12

BMEN E4103x Anatomy of the Thorax and Abdomen 2 pts. Prerequisites: graduate standing in Biomedical Engineering. This course is designed for the Biomedical Engineering graduate student interested in acquiring in-depth knowledge of anatomy relevant to his/her doctoral research. Lectures and tutorial sessions may be taken with or without the associated laboratory (BMEN E4104)

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E4103
BMEN 4103	78052 001	TBA		0

BMEN E4104x Anatomy Laboratory: Thorax and Abdomen. 2 pts. Prerequisites: graduate standing in Biomedical Engineering. Corequisites: (BMEN E4103.)

BMEN E4105x Anatomy of the Extremities 2 pts. Prerequisites: graduate standing in Biomedical Engineering. This course is designed for the Biomedical Engineering graduate student interested in acquiring in-depth knowledge of anatomy relevant to his/her doctoral research. Lectures and tutorial sessions may be taken with or without the associated laboratory (BMEN E4106).

BMEN E4106x Anatomy Laboratory: Extremities 2 pts. Prerequisites: graduate standing in Biomedical Engineering. Corequisites: (BMEN E4105).

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E4106
BMEN 4106	82303 001	TBA		0

BMEN E4107x Anatomy of the Head and Neck 2 pts. Prerequisites: graduate standing in Biomedical Engineering. . This course is designed for the Biomedical Engineering graduate student interested in acquiring in-depth knowledge of anatomy relevant to his/her doctoral research. Lectures and tutorial sessions may be taken with or without the associated laboratory (BMEN E4108).

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E4107
BMEN 4107	82756 001	TBA		0

BMEN E4108x Anatomy Laboratory: Head and Neck 2 pts. Prerequisites: graduate standing in Biomedical Engineering. Corequisites: (BMEN E4107).

BMEN E4210x Thermodynamics of biological systems 4 pts. Prerequisites: CHEM C1404 and MATH V1202 Corequisites: BIOL C2005 or equivalent Introduction to the thermodynamics of biological systems, with a focus on connection microscopic molecular properties to macroscopic states. Both classical and statistical thermodynamics will be applied to biological systems; phase equilibria, chemical reactions, and colligative properties. Topics in modern biology, macromolecular behavior in solutions and interfaces, protein-ligand binding, and the hydrophobic effect.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E4210
BMEN 4210	85802 001	TBA		27

BMEN E4300y Solid Biomechanics 3 pts. Prerequisites: ENME-MECE E3105 and ENME E3113 This course introduces applications of continuum mechanics to the understanding of various biological tissues properties. The structure, function, and mechanical properties of various tissues in biological systems, such as blood vessels, muscle, skin, brain tissue, bone, tendon, cartilage, ligaments, etc., will be examined. The focus will be on the establishment of basic governing mechanical principles and constitutive relations for each tissue. Experimental determination of various tissue properties will be introduced and demonstrated. The important medical and clinical implications tissue mechanical behavior will be emphasized.

BMEN E4301x Structure, Mechanics, and Adaptation of Bone 3 pts.Not offered in 2008-2009. Introduction to structure, physiology, and biomechanics of bone. Structure, function, and physiology of skeletal bones; linear elastic properties of cortical and trabecular bone; anisotropy and constitutive models of bone tissue; failure and damage mechanics of bone; bone adaptation and fracture healing; experimental determination of bone properties; and morphological analysis of bone microstructure.

BMEN E4305y Cardiac mechanics 3 pts.Not offered in 2008-2009. Prerequisites: BMEN E3310 and BMEN E3320 or equivalents. Cardiac anatomy, passive myocardial constitutive properties, electrical activation, ventricular pump function, ventricular-vascular coupling, invasive and noninvasive measures of regional and global function, models for predicting ventricular wal stress. Alterations in muscle properites and ventricular function resulting from myocardial infarction, heart failure, and left ventricular assist.

BMEN E4340y Biomechanics of Cells 3 pts. Prerequisites: BMEN E3320 and BMEN E4300 or equivalents. Survey of experiments and theoretical analyses of the mechanical behavior of individual living non-muscle cells. Emphasis on quantitative analytic description using continuum mechanics and molecular level theory from the standpoint of statistical mechanics and mechanical models. Mechanics of erythrocytes, leukocytes, endothelial cells, and fibroblasts; models of aggregation, adhesion, locomotion, amoeba motility, cell division and morphogenesis; molecular level models of actin, myosin, microtubules, and intermediate filaments and relation to mechanical properties of cells and cytoskeleton. Alternative models of cytoskeletal mechanics, foam theory, tensegrity. Analysis of experimental techniques including micropipette studies, optical and magnetic cytometry, and nano-indentation.

BMEN E4400x Wavelet Applications In Biomedical Image and Signal Processing 3 pts. Prerequisites: AMAP 3101 or equivalent. An introduction to methods of wavelet analysis and processing techniques for the quantification of biomedical images and signals. Topics include: frames and overcomplete representations, multiresolution algorithms for denoising and image restoration, multiscale texture segmentation and classification methods for computer aided diagnosis.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E4400
BMEN 4400	17854 001	TBA		8

BMEN E4410y Ultrasound In Diagnostic Imaging 3 pts. Prerequisites: MATH V1105 or equivalent, Fourier analysis. Physics of diagnostic ultrasound and principles of ultrasound imaging instrumentation. Propagation of plane waves in lossless medium; ultrasound propagation through biological tissues; single-element and array transducer design; pulse-echo and Doppler ultrasound instrumentation, performance evaluation of ultrasound imaging systems using tissue-mimicking phantoms, ultrasound tissue characterization; ultrasound nonlinearity and bubble activity; harmonic imaging; acoustic output of ultrasound systems; biological effects of ultrasound.

BMEN E4420y Biomedical Signal Processing and Signal Modeling 3 pts. Prerequisites: APMA E3101 and ELEN E3202 or instructor's permission Fundamental concepts of signal processing in linear systems and stochastic processes. Estimation, detection and filtering methods applied to biomedical signals. Harmonic analysis, auto-regressive model, Wiener and Matched filters, linear discriminants, and independent components. Methods are developed to answer concrete questions on specific data sets in modalities such as ECG, EEG, MEG, Ultrasound. Lectures accompanied by data analysis assignments using MATLAB.

BMEN E4430x Principles of Magnetic Resonance Imaging 3 pts. Prerequisites: APAM E3101, MATH E1210, PHYS C1403 or instructors' permission. Fundamental principles of Magnetic Resonance Imaging (MRI), including the underlying spin physics and mathematics of image formation with an emphasis on the application of MRI to neuroimaging, both anatomical and functional. The course will examine both theory and experimental design techniques.

BMEN E4440y Physiological Control Systems 3 pts. Prerequisites: APMA E2101 and with instructor's approval or senior standing Dynamic system modeling and simulation of cardiovascular, respiratory, and thermoregulatory systems. Open and closed physiological loops. Internal and external controllers: baroreflex, chemoreflex, and ventilator. Fundamentals of time and frequency domain analyses and stability. Emulation of normal and pathophysiological conditions. Clinical relevance and decision support. Matlab and SIMULINK programming environments will be utilized

BMEN E4450y Dental and Craniofacial Tissue Engineering 3 pts. Prerequisites: MSAE E3103, BMEN E4210, BMEN E4501 or equivalent Principles of dental and craniofacial bioengineering, periodontal tissue engineering: beyond guided tissue regeneration, craniofacial regeneration by stem cells and engineered scaffolds, biomaterials: Engineering approaches in tissue regeneration, bone biology and development: instructive cues for tissue engineers.

BMEN E4501x Tissue Engineering, I: Biomaterials and Scaffold Design 3 pts. Prerequisites: BIOL C2005-C2006; BMEN E4001-E4002. An introduction to the strategies and fundamental bioengineering design criteria in the development of biomaterials and tissue engineered grafts. Material structural-functional relationships, biocompatibility in terms of material and host responses. Through discussions, readings, and a group design project, students acquire an understand of cell-material interactions and identify the parameters critical in the design and selection of biomaterials for biomedical applications.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E4501
BMEN 4501	27204 001	TBA		47

BMEN E4502y Tissue Engineering, II: Biological Tissue Substitutes 3 pts. Prerequisites: BIOL C2005-C2006, BMEN E4001-E4002 An introduction to the strategies and fundamental bioengineering design criteria behind the development of cell-based tissue substitutes. Topics include biocompatibility, biological grafts, gene therapy-transfer, and bioreactors.

BMEN E4540y Bioelectrochemistry 3 pts. Prerequisites: CHEM C3079 and CHEM C3443 or equivalent Application of electrochemical kinetics to interfacial processes occurring in biomedical systems. Basics of electrochemistry, electrochemical instrumentation, and relevant cell and electrophysiology reviewed. Applications to interpretation of excitable and nonexcitable membrane phenomena, with emphasis on heterogeneous mechanistic steps. Examples of therapeutic devices created as a result of bioelectrochemical studies.

BMEN E4550y Micro- and Nano-Structures in Cellular Engineering 3 pts.Not offered in 2008-2009. Prerequisites: BIOL W2005 and BIOL W2006 or equivalent Design, fabrication, and application of micro-/nano-structured systems for cell engineering. Recognition and response of cells to spatial aspects of their extracellular environment. Focus on neural, cardiac, co-culture, and stem cell systems. Molecular complexes at the nanoscale.

BMEN E4560y Dynamics of Biological Membranes 3 pts.Not offered in 2008-2009. Prerequisites: BIOL C2005, BMEN E4001 or equivalent. The structure and dynamics of biological (cellular) membranes are discussed, with an emphasis on biophysical properties. Topics include membrane composition, fluidity, lipid asymmetry, lipid-protein interactions, membrane turnover, membrane fusion, transport, lipid phase behavior. In the second half of the semester, students will lead discussions of recent journal articles.

BMEN E4570x Science and Engineering of Body Fluids 3 pts. Prerequisites: General chemistry, organic chemistry, and basic calculus. Body fluids as a dilute solution of polyelectrolyte molecules in water. Study of physical behavior as affected by the presence of ions in surrounding environments. The physics of covalent, ionic, and hydrogen bonds are reviewed, in relation to the structure/properties of the body fluid. Selected physiological processes are examined in physical-chemical terms for polymers.

BMEN E4590x BioMems: Cellular and Molecular Applications 3 pts.Not offered in 2008-2009. Prerequisites: Chemistry CHEM C3443 or CHEN C3545 or equivalent and MATH V1201 Corequisites: BIOL W2005 or equivalent Topics include biomicroelectromechanical, microfluidic, and lab-on-a-chip systems in biomedical engineering, with a focus on cellular and molecular applications. Microfabrication techniques, biocompatibility, miniaturization of analytical and diagnostic devices, high-throughput cellular studies, microfabrication for tissue engineering, and in vivo devices.

BMEN E4601y Cellular Electricity 3 pts.Not offered in 2008-2009. Bioelectricity of the cell membrane. Basis of cell resting voltage, voltage changes that lead to the action potential and electrical oscillations used in sensing systems. Laboratory includes building electronic circuits to measure capacitance of artificial membranes and ion pumping in frog skin. Lab Required.

MEBM E4702x Advanced Musculoskeletal Biomechanics 3 pts.Not offered in 2008-2009. Advanced analysis and modeling of the musculoskeletal system. Topics include advanced concepts of 3-D segmental kinematics, musculoskeletal dynamics, experimental measurements of joint kinematics and anatomy, modeling of muscles and locomotion, multibody joint modeling, introduction to musculoskeletal surgical simulations.

BMEN E4737x Computer Control of Medical Instrumentation 3 pts.Not offered in 2008-2009. Prerequisite: basic knowledge of the C programming language. Acquisition and presentation of data for medical interpretation. Operating principles of medical devices: technology of medical sensors, algorithms for signal analysis, computer interfacing and programming, interface design. Laboratory assignments cover basic measurement technology, interfacing techniques, use of Labview« software instrument interrogation and control, automated ECG analysis, ultrasonic measurements, image processing applied to x-ray images and CAT scans.

BMEN E4738y Transduction and Acquisition of Biomedical Data 3 pts.Not offered in 2008-2009. Data transduction and acquisition systems used in biomedicine. Assembly of bio-transducers and the analog/digital circuitry for acquiring electrocardiogram, electromyogram, and blood pressure signals. Each small group will develop and construct a working data acquisition board, which will be interfaced with a signal generator to elucidate the dynamics of timing constraints during retrieval of bio-data. Lab Required.

BMEN E4750y Sound and Hearing 3 pts. Lect: 3 Prerequisites: PHYS C1401 and MATH V1105 - MATH V1106. Introductory acoustics, basics of waves and discrete mechanical systems. The mechanics of hearing -- how sound is transmitted through the external and middle ear to the inner ear, and the mechanical processing of sound within the inner ear.

CBMF W4761y Computational Genomics 3 pts. Prerequisites: Working knowledge of at least one programming language, and some background in probability and statistics. Computational techniques for analyzing and understanding genomic data, including DNA, RNA, protein and gene expression data. Basic concepts in molecular biology relevant to these analyses. Emphasis on techniques from artificial intelligence and machine learning. String-matching algorithms, dynamic programming, hidden Markov models, expectation - maximization, neural networks, clustering algorithms, support vector machines. Students with life sciences backgrounds who satisfy the prerequisites are encouraged to enroll.

BMEN E4810y Artificial Organs 3 pts.Not offered in 2008-2009. Analysis and design of replacements for the heart, kidneys, and lungs. Specification and realization of structures for artificial organ systems.

BMEN E4894x Biomedical Imaging 3 pts. This course covers image formation, methods of analysis, and representation of digital images. Measures of qualitative performance in the context of clinical imaging. Algorithms fundamental to the construction of medical images via methods of computed tomography, magnetic resonance, and ultrasound. Algorithms and methods for the enhancement and quantification of specific features of clinical importance in each of these modalities.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E4894
BMEN 4894	28653 001	TBA		19

BMEN E4898y Biophotonics 3 pts.Not offered in 2008-2009. Prerequisites: BMEN E4894 Biomedical Imaging, PHYS C1403 Classical & Quantum Waves, or instructor's permission. This course provides a broad-based introduction into the field of Biophotonics. Fundamental concepts of optical, thermal, and chemical aspects of the light-tissue interactions will be presented. The application of these concepts for medical therapy and diagnostics will be discussed. The course includes theoretical modeling of light-tissue interactions as well as optical medical instrument design and methods of clinical data interpretation.

BMEN E6003x Computational Modeling of Physiological Systems 3 pts. Prerequisites: BMEN E4001 and E4002 or equivalent, and APMA E4200 or equivalent. Advanced computational modeling and quantitative analysis of selected physiological systems from molecules to organs. Selected systems are analyzed in depth with an emphasis on modeling methods and quantitative analysis. Topics may include cell signaling, molecular transport, excitable membranes, respiratory physiology, nerve transmission, circulatory control, auditory signal processing, muscle physiology, data collection and analysis.

NOTE:

This course replaces the BMEN E6001/E6002 sequence, which focused on cellular/molecular and tissue/organ systems, respectively. This course is required for graduate students in Biomedical Engineering, typically in their first or second year of study.

EEBM E6020y Methods of Computational Neuroscience 4.5 pts. Prerequisites: BMEB W4011 Formal methods in computational neuroscience including methods of signal processing, communications theory, information theory, systems and control, system identification and machine learning. Molecular models of transduction pathways. Robust adaptation and integral feedback. Stimulus representation and groups. Stochastic and dynamical systems models of spike generation. Neural diversity and ensemble encoding. Time encoding machines and neural codes. Stimulus recovery with time decoding machines. MIMO models of neural computation. Synaptic plasticity and learning algorithms. Major project(s) in Matlab.

BMEE E6030y Neural Modeling and Neuroengineering 3 pts. Prerequisites: APMA E3101, ELEN E3801 and BMEB W4011, or the equivalent, or the instructor's permission. Engineering perspective on the study of multiple levels of brain organization, from single neurons to cortical modules and systems. Mathematical models of spiking neurons, neural dynamics, neural coding, and biologically-based computational learning. Architectures and learning principles underlying both artificial and biological neural networks. Computational models of cortical processing, with an emphasis on the visual system. Applications of principles in neuroengineering; neural prostheses, neuromorphic systems and biomimetics. Course will include a computer simulation laboratory. Lab Required.

BMEN E6301y Modeling of Biological Tissues With Finite Elements 3 pts.Not offered in 2008-2009. Prerequisites: MECE E6422, or ENME E6315, or equivalent. Structure-function relations and linear/nonlinear constitutive models of biological tissues: anisotropic elasticity, viscoelasticity, porous media theories, mechano-electrochemical models, infinitesimal and large deformations. Emphasis on the application and implementation of constitutive models for biological tissues into existing finite element software packages. Model generation from biomedical images by extraction of tissue geometry, inhomogeneity and anisotropy. Element-by-element finite element solver for large-scale image based models of trabecular bone. Implementation of tissue remodeling simulations in finite element models.

MEBM E6310x-E6311y Mixture Theories for Biological Tissues, I & II 3 pts.Not offered in 2008-2009. Prerequisites: MECE E6422 and APMA E4200, or equivalent Development of governing equations for mixtures with solid matrix, interstitial fluid, and ion constituents. Formulation of constitutive models for biological tissues. Linear and nonlinear models of fibrillar and viscoelastic porous matrices. Solutions to special problems, such as confined and unconfined compression, permeation, indentation and contact, and swelling experiments.

BMEN E6400x Analysis and Quantification of Medical Images 3 pts.Not offered in 2008-2009. Novel methods of mathematical analysis applied to problems in medical imaging. Design requirements for screening protocols, treatment therapies, and surgical planning. Sensitivity and specificity in screening mammography and chest radiographs, computer aided diagnosis systems, surgical planning in orthopaedics, quantitative analysis of cardiac performance, functional magnetic resonance imaging, positron emission tomography, and echocardiography data.

BMEN E9100x or y Masters Research 1-6 pts. Candidates for the M.S. degree may conduct an investigation of some problem in biomedical engineering culminating in a thesis describing the results of their work. No more than 6 points in this course may be counted for graduate credit, and this credit is contingent upon the submission of an acceptable thesis.

Course Number	Call Number/ Section	Days & Times/ Location	Instructor	Enrollment
Autumn 2008 :: BMEN E9100
BMEN 9100	62536 001	TBA		0
BMEN 9100	41199 002	TBA		0
BMEN 9100	41599 003	TBA		0
BMEN 9100	43357 004	TBA		0
BMEN 9100	45852 005	TBA		0
BMEN 9100	46402 006	TBA		2
BMEN 9100	48054 007	TBA		1
BMEN 9100	48454 008	TBA		0
BMEN 9100	51301 009	TBA		0
BMEN 9100	51801 010	TBA		0
BMEN 9100	52299 011	TBA		0
BMEN 9100	52707 012	TBA		0
BMEN 9100	53355 013	TBA		1
BMEN 9100	53704 014	TBA		1
BMEN 9100	56199 015	TBA		0
BMEN 9100	56604 016	TBA		2
BMEN 9100	57001 017	TBA		0
BMEN 9100	57451 018	TBA		0
BMEN 9100	72149 019	TBA		0
BMEN 9100