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Course Criteria
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3.00 Credits
Prerequisite(s): BE 301 (Signals and Systems) or equivalent, computer programming experience, preferably MATLAB (e.g., as used the BE labs, BE 209/210/310). Some basic neuroscience background (e.g. BIOL 215, BE 305, BE 520, INSC core course), or independent study in neuroscience, is required. This requirement may be waived based upon practical experience on a case by case basis by the instructor. The course is geared to advanced undergraduate and graduate students interested in understanding the basics of implantable neuro-devices, their design, practical implementation, approval, and use. Reading will cover the basics of neuro signals, recording, analysis, classification, modulation, and fundamental principels of Brain-Machine Interfaces. The course will be based upon twic weekly lectures and "hands-on" weekly assignments that teach basic signal recording, feature extraction, classification and practical implementation in clinical systems. Assignments will build incrementally toward constructing a complete, functional BMI system. Fundamental concepts in neurosignals, hardware and software will be reinforced by practical examples and in-depth study. Guest lecturers and demonstrations will supplement regular lectures.
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3.00 Credits
This course provides an introduction to the quantitative methods used in characterizing and engineering biomolecular properties and cellular behavior, focusing primarily on receptor-mediated phenomena. The thermodynamics and kinetics of protein/ligand binding are covered, with an emphasis on experimental techniques for measuring molecular parameters such as equilibrium affinities, kinetic rate constants, and diffusion coefficients. Approaches for probing and altering these molecular properties of proteins are also described, including site-directed mutagenesis, directed evolution, rational design, and covalent modification. Equilibrium, kinetic, and transport models are used to elucidate the relationships between the aforementioned molecular parameters and cellular processes such as ligand/receptor binding and trafficking, cell adhesion and motility, signal transduction, and gene regulation.
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3.00 Credits
Prerequisite(s): Biol 121, Biol 202, BE 209, BE 210 or permission of the instructor. This course is designed to expose students to the principles underlying engineering microbial systems. The fundamentals of DNA, RNA, and proteins will be reviewed. An emphasis will be placed on recombinant DNA technologies, mutagenesis, cloning, gene knockouts, altered gene expression and analysis, with practical real world examples of their application. Throughout this course we will also focus on case studies and cricial literature evaluation.
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3.00 Credits
Prerequisite(s): Background in Biology, Chemistry or Engineering with coursework in thermodynamics or permission of the instructor. From single molecule studies to single cell manipulations, the broad field of cell and molecular biology is becoming increasingly quantitative and increasingly a matter of systems simplification and analysis. The elaboration of various stresses on cellular structures, influences of interaction pathways and convolutions of incessant thermal motions will be discussed via lectures and laboratory demonstration. Topics will range from, but are not limited to, protein folding/forced unfolding to biomolecule associations, cell and membrane mechanics, and cell motility, drawing from very recent examples in the literature. Frequent hands-on exposure to modern methods in the field will be a significant element of the course in the laboratory. Skills in analytical and professional presentations, papers and laboratory work will be developed.
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3.00 Credits
Prerequisite(s): BE 350 or equivalent, or permission of the instructor. Development of concepts about the operation of the mammalian cardiovascular system as conceived in the years 198 (by Galenus), 1628 (by Harvey), and 1998 (at Penn by A. Noordergraaf).
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3.00 Credits
Continuum mechanics with applications to biological systems. Fundamental engineering conservation laws are introduced and illustrated using biological and non-biological examples. Kinematics of deformation, stress, and conservation of mass, momentum, and energy. Constitutive equations for fluids, solids, and intermediate types of media are described and applied to selected biological examples. Class work is complemented by hands-on experimental and computational laboratory experiences.
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3.00 Credits
This course aims to provide theoretical, conceptual, and hands-on modeling experience on three different length and time scales that are crucial to biochemical phenomena in cells and to nanotechnology applications. Special Emphasis will be on cellular signal transduction. 60% lectures, 40% computational laboratory. No programming skills required.
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3.00 Credits
Prerequisite(s): Junior or Senior standing in Bioengineering, or permission of the instructor. This course discusses the design, development, and evaluation of medical devices. Emphasis is placed on the process of matching technological opportunities to medical needs. Medical devices are analyzed from three viewpoints: technology driven applications, competing technologies, and disease-related technology clusters.
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3.00 Credits
Prerequisite(s): BE 301 or ESE 325. Introduction to the mathematical, physical and engineering design principles underlying modern medical imaging systems including x-ray computed tomography, ultrasonic imaging, and magnetic resonance imaging. Mathematical tools including Fourier analysis and the sampling theorem. The Radon transform and related transforms. Filtered backprojection and other reconstruction algorithms. Bloch equations, free induction decay, spin echoes and gradient echoes. Applications include one-dimensional Fourier magnetic resonance imaging, three-dimensional magnetic resonance imaging and slice excitation.
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3.00 Credits
Prerequisite(s): BIOL 215 or BE 305 or permission of the instructor. This course will provide a comprehensive survey of modern medical imaging modalities with an emphasis on the emerging field of molecular imaging. The basic principles of X-ray, computed tomography, nuclear imaging, magnetic resonance imaging, and optical tomography will be reviewed. The emphasis of the course, however, will focus on the concept of contrast media and targeted molecular imaging. Topics to be covered include the chemistry and mechanisms of various contrast agents, approaches to identifying molecular markers of disease, ligand screening strategies, and the basic principles of toxicology and pharmacology relevant to imaging agents.
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