Biomedical Engineering (BME) 1

BIOMEDICAL ENGINEERING (BME)

BME 100 BME 315 Introduction to the Profession Instrumentation and Measurement Laboratory Introduces the student to the scope of the biomedical engineering Laboratory exercises stress instrumentation usage and data profession and its role in society, and develops a sense of analysis used to determine physiological functions and variables professionalism in the student. Provides an overview of biomedical and the relations to the physiological variability. engineering through lectures, presentations by outside speakers, Prerequisite(s): ECE 211* and BME 200, An asterisk (*) designates a hands-on exercises, and scientific literature analyses. Develops course which may be taken concurrently. professional communication and teamwork skills. Lecture: 0 Lab: 3 Credits: 1 Lecture: 1 Lab: 2 Credits: 2 Satisfies: Communications (C) BME 320 Fluids Laboratory BME 200 Laboratory experiments in thermodynamics, biological fluid Biomedical Engineering Computer Applications flow, and heat transfer. Emphasis is placed on current methods, In this course, students will apply programming to solve quantitative instrumentation, and equipment used in biomedical engineering; oral biomedical engineering problems across cell/tissue engineering, presentation of results; and on the writing of comprehensive reports. neural engineering, and medical imaging. Students will also be Open only to Biomedical Engineering majors. exposed to additional engineering and product development Corequisite(s): BME 301 programming tools and environments. Prerequisite(s): BIOL 117 and BME 315 Prerequisite(s): MATH 252* and CS 104, An asterisk (*) designates a Lecture: 0 Lab: 3 Credits: 1 course which may be taken concurrently. Satisfies: Communications (C) Lecture: 1 Lab: 2 Credits: 2 BME 325 BME 301 Bioelectronics Laboratory Bio-Fluid Mechanics Practical hands on design, construction and testing of electric and Basic properties of fluids in motion. Lagrangian and Eulerian electronic circuitry for biomedical applications. Basic concepts viewpoints, material derivative, streamlines. Continuity, energy, will be presented with emphasis on their relevance to the design of angular and linear momentum equations in integral and differential systems that can be used for clinical and basic scientific research. forms. Applications in biofluids and biomedical devices; rheology of Prerequisite(s): ECE 213 and BME 315 biological fluids. Lecture: 0 Lab: 3 Credits: 1 Corequisite(s): BME 320 Prerequisite(s): MATH 251 and MMAE 200 and BIOL 115 BME 330 Lecture: 3 Lab: 0 Credits: 3 Analysis of Biosignals and Systems This course is a junior level introduction to the theoretical and BME 309 practical aspects of signal processing and dynamic systems Biomedical Imaging behavior as they relate to physiological, biological, and biomedical An introduction to biomedical imaging concepts and modalities. systems. The topics covered will include sampling theory, Topics covered include general principles of image science (image continuous and discrete Fourier transforms and series, Laplace quality, sampling, etc.), X-ray-based imaging [conventional x-ray transforms, Linear systems theory, signal filtering, models of imaging, mammography, computed tomography (CT), and digital biological and physiological systems, and analysis of dynamic and subtraction angiography (DSA)], and nuclear medicine [gamma feedback systems. camera, single photon emission computed tomography (SPECT), Prerequisite(s): ECE 211 and MATH 252 and positron emission tomography (PET)]. Lecture: 3 Lab: 0 Credits: 3 Prerequisite(s): (BME 330* or ECE 308*) and PHYS 221, An asterisk (*) designates a course which may be taken concurrently. BME 331 Lecture: 3 Lab: 0 Credits: 3 Modeling and Control of Biological Systems The course expands upon the systems and signal processing BME 310 concepts introduced in BME 330 to develop the tools to model Biomaterials physiological processes and the feedback control of these Applications of biomaterials in different tissue and organ systems. processes. Relationship between physical and chemical structure of materials Prerequisite(s): (BME 330 or ECE 308) and BME 422 and biological system response. Choosing, fabricating, and Lecture: 3 Lab: 0 Credits: 3 modifying materials for specific biomedical applications. Prerequisite(s): CHEM 125 and PHYS 123 Lecture: 3 Lab: 0 Credits: 3 Satisfies: Communications (C) 2 Biomedical Engineering (BME)

BME 335 BME 418 Thermodynamics of Living Systems Reaction Kinetics for BME Principles of thermodynamics and conservation of mass applied This course focuses on analysis of rate data and single and to living systems and biomedical devices. The first and second multiple reaction schemes. Biomedical topics include biological laws of thermodynamics, pHs and chemical equilibrium, metabolic systems, enzymatic pathways, enzyme and receptor-ligand kinetics, stoichiometry and energetics. pharmacokinetics, heterogeneous reactions, microbial cell growth Prerequisite(s): CHE 202 and BME 301* and MATH 251, An asterisk and product formation, and the design and analysis of biological (*) designates a course which may be taken concurrently. reactors. Lecture: 3 Lab: 0 Credits: 3 Corequisite(s): BME 482 Prerequisite(s): BIOL 403 and MATH 252 and BME 335 BME 402 Lecture: 3 Lab: 0 Credits: 3 Introduction to Regulatory Science for Engineers Engineers must be equipped to answer the growing demands for BME 419 new medical technologies. Introduction to Regulatory Science Introduction to Design Concepts in Biomedical Engineering teaches engineers how the regulated environment impacts the Introduction to Design Concepts in Biomedical Engineering. This design, testing. and delivery of medical devices. It will equip course aims to educate students on project definition, and on the students with the essential skills and tools critical to the practice design, development and technology transfer of potential biomedical of engineering in the medical device industry. In this course, products in the context of the student's major capstone project. students will be exposed to the core concepts, processes, and tools Students will learn best practices for designing a marketable surrounding the global medical device regulatory framework, and medical device, including the design process from the clinical will gain foundational knowledge for the practical application of problem definition through prototype and clinical testing to market regulations throughout the product development lifecycle. From readiness. knowledge gained in the class, students will be expected to work Prerequisite(s): BME 315 and (BME 320 or BME 325) and BME 422 in teams and use critical thinking, data analysis and interpretation Lecture: 2 Lab: 0 Credits: 2 skills to research, evaluate, and present a scientific, technical, and Satisfies: Communications (C) legally justifiable approach for the global introduction of a new medical device. BME 420 Lecture: 3 Lab: 0 Credits: 3 Design Concepts in Biomedical Engineering An introduction to the strategies and fundamental bioengineering BME 405 design criteria behind the development of biomedical engineering Physiology Laboratory systems and implantable devices that use either synthetic materials A laboratory course which demonstrates basic concepts of or hybrid (biological-synthetic)systems. Analysis and design of bioengineering design through experimental procedures involving replacements for the heart, kidneys, and lungs. Specification and humans and experimental animals. Statistical principles of realization of structures for artificial organ systems. Students will be experimental design. Study of possible errors. Experiments required to complete a team-oriented design project in their chosen include nerve action, electrocardiography, mechanics of muscle, track. membranes, and noninvasive diagnostics in humans. Open only to Prerequisite(s): BME 419 Biomedical Engineering majors. Lecture: 3 Lab: 0 Credits: 3 Corequisite(s): BME 453 Satisfies: Communications (C) Prerequisite(s): BME 315 Lecture: 0 Lab: 3 Credits: 1 BME 422 Mathematical Methods for Biomedical Engineers BME 417 This course integrates mathematical and computational tools that Technologies for Treatment of Diabetes address directly the needs of biomedical engineers. The topics Study of physiological control systems and engineering of external covered include the mathematics of diffusion, pharmacokinetic control of biological systems by focusing on an endocrine system models, biological fluid mechanics, and biosignal representations disorder -- diabetes. The effects of type 1 diabetes on glucose and analysis. The use of MATLAB will be emphasized for homeostasis and various treatment technologies for regulation numerically solving problems of practical relevance. of glucose concentration. Development of mathematical models Prerequisite(s): (MATH 252 and CS 104) and (BME 330* or describing the dynamics of glucose and insulin concentration ECE 308*), An asterisk (*) designates a course which may be taken variations, blood glucose concentration measurement and inference concurrently. techniques, insulin pumps, and artificial pancreas systems. Lecture: 3 Lab: 0 Credits: 3 Lecture: 3 Lab: 0 Credits: 3 Biomedical Engineering (BME) 3

BME 423 BME 427 Cell Biomechanics: Principles and Biological Processes Extracellular Matrix Biology This course will provide students an opportunity to learn about The Extra Cellular Matrix (ECM) is that which connects cells in mechanical forces that develop in the human body and how they tissues and provides much of the organization and support in can influence cell functions in a range of biological processes almost every tissue and or organ system of the body. Thus the aim from embryogenesis, wound healing, and regenerative medicine of this course is to give students insights into ECM biology and its to pathological conditions such as cancer invasion. Examples of relevance to modern medicine and biomedical (tissue) engineering. research methods for investigating cell biomechanics in various A significant portion of working population is suffering from ECM- biological systems will be discussed. related maladies, and the focus of research has shifted into creating Prerequisite(s): BME 301 ECM implants. The ECM implant market is growing rapidly. For Lecture: 3 Lab: 0 Credits: 3 instance, the collagen meniscus implant market was reported to be at $308.6 million in 20181. Understanding the implications of the BME 424 molecular biology of ECM to feed into this research is highly relevant Quantitative Aspects of Cell and Tissue Engineering for students considering careers (academic and industry) in life This course is designed to cover fundamentals of cell and sciences in industry, academia and healthcare. Extracellular Matrix tissue engineering from a quantitative perspective. Topics (ECM) is a highly complex system in mammalian biology responsible addressed include elements of tissue development, cell growth for structural support and functional (biochemical) signals for and differentiation, cell adhesion, migration, molecular and cellular physiology. Specific amino acid sequences on the various ECM transport in tissues and polymeric hydrogels for tissue engineering elements are responsible to trigger intra- and extracellular cascades and drug delivery applications. leading to cell division, proliferation, tissue regeneration, wound Prerequisite(s): BME 418 and BME 482 and BME 422 healing and inflammation. This course will focus on the following Lecture: 3 Lab: 0 Credits: 3 key concepts: a) Gene expression, structure and function of various ECM proteins and complexes and the physiological processes. BME 425 b) Etiology and the molecular progression of diseases caused by Introduction to Medical Devices, BioMEMS and Microfluidics abnormalities to ECM proteins. c) Mechanobiology of various ECM This course will present fundamentals and applications of medical proteins. d) Structure function and mechanical function of ECM devices, BioMEMS, and microfluidic technologies for applications interfaces with other tissues (muscle, bone, skin etc.) e) Implications in the broad health and biomedical engineering. It will provide for tissue engineering and development of novel biomimetic and a broad view of the general field and a knowledge of relevant biological ECM implants. fabrication methods and analysis techniques. Fabrication and Lecture: 750 Lab: 0 Credits: 3 analytical techniques, interfacing with biological materials, and techniques for analyte detection will be emphasized. The course will BME 431 include individual projects and critical paper reviews in which each Modern Optics and Lasers student will be encouraged to master basic concepts in design and This is an undergraduate course covering the basics of optics and fabrication for devices for specific applications. modern aspects of the field such as lasers and nonlinear optics. Lecture: 3 Lab: 0 Credits: 3 Connections to other fields such as acoustics, microwaves, electron- beam optics, quantum mechanics will be pointed out. The theory will be supplemented with demonstration experiments of optical phenomena. Practical problems will be discussed such as the design of an optical imaging system or precision interferometry. Prerequisite(s): PHYS 221 Lecture: 3 Lab: 0 Credits: 3

BME 433 Biomedical Engineering Applications of Statistics Application of modern computing methods to the statistical analysis of biomedical data. Sampling, estimation, analysis of variance, and the principles of experimental design and clinical trials are emphasized. Prerequisite(s): MATH 251 Lecture: 3 Lab: 0 Credits: 3 4 Biomedical Engineering (BME)

BME 437 BME 450 Introduction to Molecular Imaging Animal Physiology This course provides an overview of molecular imaging, a Respiration; circulation; energy metabolism; temperature regulation; subcategory of medical imaging that focuses on noninvasively water and osmotic regulation; digestion and excretion; muscle and imaging molecular pathways in living organisms. Topics include movement; nerve excitation; information control and integration; imaging systems, contrast agents, reporter genes and proteins, chemical messengers. Emphasis on general principles with tracer kinetic modeling. Preclinical and clinical applications will also examples drawn from various animal phyla. Same as BIOL 430. be discussed with an emphasis on cancer and the central nervous Prerequisite(s): BIOL 107 or BIOL 115 system. Lecture: 3 Lab: 0 Credits: 3 Prerequisite(s): BME 422 Lecture: 3 Lab: 0 Credits: 3 BME 452 Control Systems for Biomedical Engineers BME 438 Control systems design and analysis in biomedical engineering. Neuroimaging Time and frequency domain analysis, impulse vs. step response, This course describes the use of different imaging modalities open vs. closed loop response, stability, adaptive control, system to study brain function and connectivity. The first part of the modeling. Emphasis is on understanding physiological control course deals with brain function. It includes an introduction to systems and the engineering of external control of biological energy metabolism in the brain, cerebral blood flow, and brain systems. activation. It continues with an introduction to magnetic resonance Prerequisite(s): BME 330 imaging (MRI), perfusion-based fMRI, BOLD fMRI, fMRI paradigm Lecture: 3 Lab: 0 Credits: 3 design and statistical analysis, introduction to positron emission tomography (PET) and studying brain function with PET, introduction BME 453 to magneto encephalography and studying brain function with Quantitative Physiology (MEG). The second part of the course deals with brain connectivity. This course provides a quantitative approach to fundamental It includes an introduction to diffusion tensor MRI, explanation to physiological principles and systems. The course covers basic cell the relationship between the diffusion properties of tissue and its physiology, membrane transport, action potentials and excitable structural characteristics, white matter fiber tractography. tissue, and skeletomuscular, nervous, cardiovascular, respiratory, Prerequisite(s): PHYS 221 renal, and endocrine systems. Lecture: 3 Lab: 0 Credits: 3 Corequisite(s): BME 405 Prerequisite(s): BIOL 115 BME 439 Lecture: 3 Lab: 0 Credits: 3 Advanced Medical Imaging This course introduces advanced clinical imaging modalities, BME 455 research imaging techniques, and concepts from image science Cardiovascular Fluid Mechanics and image perception. The first part of the course introduces the Anatomy of the cardiovascular system. Scaling principles. Lumped perception of image data by human observers and the visualization parameter, one-dimensional linear and nonlinear wave propagation, of brain structure and function. It includes an introduction to and three-dimensional modeling techniques applied to simulate magnetic resonance imaging (MRI) and a survey of neurological blood flow in the cardiovascular system. Steady and pulsatile imaging via functional MRI (fMRI). The second part of the course flow in rigid and elastic tubes. Form and function of blood, blood covers image science, clinical imaging applications, and novel vessels, and the heart from an engineering perspective. Sensing, research imaging techniques. It includes an introduction to radiation feedback, and control of the circulation. Possible project using detection and image quality evaluation, a survey of clinical cases, custom software to run blood flow simulations. Same as MMAE 455. and an overview of new imaging methods. Prerequisite(s): BME 301 or MMAE 310 or MMAE 313 Prerequisite(s): BME 309 Lecture: 3 Lab: 0 Credits: 3 Lecture: 3 Lab: 0 Credits: 3 BME 475 BME 443 Neuromechanics of Human Movement Biomedical Instrumentation and Electronics Concepts from mechanics and neurophysiology will be introduced Principles of circuit analysis are applied to typical transducer and and employed to analyze and model human movement, especially of signal recording situations found in biomedical engineering. the extremities. Topics will include forward and inverse kinematics Prerequisite(s): BME 315 and ECE 211 and dynamics, muscle modeling, and feedback control. Lecture: 3 Lab: 0 Credits: 3 Prerequisite(s): BME 330 or ECE 308 or MMAE 305 Lecture: 3 Lab: 0 Credits: 3 BME 445 Quantitative Neural Function Computational approach to basic neural modeling and function, including cable theory, ion channels, presynaptic potentials, stimulation thresholds, and nerve blocking techniques. Synaptic function is examined at the fundamental level. Prerequisite(s): BME 453 Lecture: 3 Lab: 0 Credits: 3 Biomedical Engineering (BME) 5

BME 482 BME 500 Mass Transport for Biomedical Engineers Introduction to Biomedical Engineering This course seeks to provide students with an introduction to Introduction to the concepts and research in biomedical advanced concepts of mass transport with an emphasis on engineering. Provides an overview of current biomedical engineering biological systems. Students will be exposed to derivation of the research areas, emphasis on application of an engineering approach conservation equations for heat, mass, and momentum. Following to medicine and physiology signals. The focus is on connecting derivation of these laws, focus will be placed on mass transport theory with practice: students are expected to critically analyze applications, including diffusion, convection-diffusion, diffusion with research manuscripts and perform corresponding analysis on reactions, and facilitated diffusion. Students will be able to apply relevant biomedical data. mass transport equations to solve problems in biological systems. Lecture: 2 Lab: 0 Credits: 2 Corequisite(s): BME 418 Prerequisite(s): BME 301 and CHE 202 BME 501 Lecture: 3 Lab: 0 Credits: 3 Communication Skills in BME Students will be taught to communicate biomedical engineering BME 490 research findings through written, poster, and oral presentation Senior Seminar formats. Masters of Science with Thesis and PhD program students Professional issues in bioengineering. Role of bioengineers in will be required to present their own research annually at the BME industry. Professional identity. Structure of bioengineering industries Seminar while enrolled in their thesis program. and product development process. Job market analysis. Current Lecture: 1 Lab: 0 Credits: 1 employment opportunities. Recruiting process and interview. Analysis of employer. Marketing versus engineering. Management BME 502 by objective. Role of higher degrees. Introduction to Regulatory Science for Engineers Lecture: 0 Lab: 0 Credits: 0 Engineers must be equipped to answer the growing demands for Satisfies: Communications (C) new medical technologies. Introduction to Regulatory Science teaches engineers how the regulated environment impacts the BME 491 design, testing. and delivery of medical devices. It will equip Independent Study students with the essential skills and tools critical to the practice Focused reading and study under the supervision of a BME of engineering in the medical device industry. In this course, faculty member. A final written report is required to receive credit. students will be exposed to the core concepts, processes, and tools **Instructor permission required.** surrounding the global medical device regulatory framework, and Credit: Variable will gain foundational knowledge for the practical application of Satisfies: Communications (C) regulations throughout the product development lifecycle. From knowledge gained in the class, students will be expected to work BME 492 in teams and use critical thinking, data analysis and interpretation Undergraduate Research skills to research, evaluate, and present a scientific, technical, and Independent research (experimental or theoretical/computational) legally justifiable approach for the global introduction of a new under the supervision of a BME faculty member. A final written medical device. report is required to receive credit. **Instructor permission Lecture: 3 Lab: 0 Credits: 3 required.** Credit: Variable BME 503 Satisfies: Communications (C) Mathematical and Statistical Methods for Neuroscience I This quarter introduces mathematical ideas and techniques in BME 493 a neuroscience context. Topics will include some coverage of BME Undergraduate Project matrices and complex variables; eigen value problems, spectral Research or design projecting involving 2 or more students under methods and Greens functions for differential equations; and some supervision of a BME faculty member. A final written report from discussion of both deterministic and probabilistic modeling in the each student is required to receive credit. **Instructor permission neurosciences. Instructor permission required. required.** Lecture: 2 Lab: 0 Credits: 2 Lecture: 3 Lab: 0 Credits: 3

BME 497 Special Problems Design, development, analysis or research on special topics defined by a faculty member or the department. **Instructor permission required.** Lecture: 0 Lab: 3 Credits: 3 6 Biomedical Engineering (BME)

BME 504 BME 509 Neurobiology Vertebrate Neural Systems This course is concerned with the structure and function of systems This lab-centered course teaches students the fundamental of neurons, and how these are related to behavior. Common patterns principles of mammation neuroanatomy. Students learn the major of organization are described from the anatomical, physiological, structures and the basic circuitry of the CNS and PNS. Students and behavioral perspectives of analysis. The comparative approach become practiced at recognizing the nuclear organization and is emphasized throughout. Laboratories include exposure to cellular architecture of many regions in animal brain models. This instrumentation and electronics, and involve work with live course is taught at the University of Chicago. Instructor permission animals. A central goal of the laboratory is to expose students to required. in vivo extracellular electrophysiology in vertebrate preparations. Lecture: 3 Lab: 0 Credits: 3 Laboratories will be attended only on one day a week but may run well beyond the canonical period. Instructor permission required. BME 510 Lecture: 2 Lab: 0 Credits: 2 Neurobiology of Disease I This seminar course is devoted to basic clinical and pathological BME 505 features and pathogenic mechanisms of neurological diseases. The Mathematical and Statistical Methods for Neuroscience II first semester is devoted to a broad set of disorders ranging from This quarter treats statistical methods important in understanding developmental to acquired disorders of the central and peripheral nervous system function. It includes basic concepts of nervous system. Weekly seminars are given by experts in the mathematical probability; information theory, discrete Markov clinical and scientific aspects of the disease under discussion. processes, and time series. Instructor permission required. For each lecture, students are given a brief description of clinical Prerequisite(s): BME 503 with min. grade of C and pathological features of a given set of neurological diseases Lecture: 2 Lab: 0 Credits: 2 followed by a more detailed description of the current status of knowledge of several of the prototypic pathogenic mechanisms. BME 506 Lecture: 2 Lab: 0 Credits: 2 Computational Neuroscience II: Vision This course considers computational approaches to vision. It BME 511 discusses the basic anatomy and physiology of the retina and Extracellular Matrices: Chemistry and Biology central visual pathways, and then examines computational Advanced topics dealing with the biology and chemistry of approaches to vision based on linear and non-linear systems theory, the extracellular matrix, cell-matrix interactions, and current and algorithms derived from computer vision. methodologies for engineering these interfaces. Lecture: 3 Lab: 0 Credits: 3 Lecture: 2 Lab: 0 Credits: 2

BME 507 BME 512 Cognitive Neuroscience Behavioral Neurosciences This course is concerned with the relationship of the nervous This course is concerned with the structure and function of systems system to higher order behaviors such as perception and encoding, of neurons and how these are related to behavior. Common patterns action, attention and learning and memory. Modern methods of of organization are described from the anatomical, physiological, imaging neural activity are introduced, and information theoretic and behavioral perspectives of analysis. The comparative approach methods for studying neural coding in individual neurons and is emphasized throughout. Laboratories include exposure to populations of neurons are discussed. Instructor permission instrumentation and electronics and work involvement with live required. animals. Lecture: 2 Lab: 0 Credits: 2 Lecture: 2 Lab: 0 Credits: 2

BME 508 BME 513 Mathematics and Statistics for Neuroscience III Methods of Computational Neuroscience: Single Neurons This course covers more advanced topics including perturbation Topics include, but are not limited to, Hodgkin-Huxley equations, and bifurcation methods for the study of dynamical systems, cable theory, single neuron models, information theory, signal symmetry methods, and some group theory. A variety of applications detection theory, reverse correlation, relating neural responses to to neuroscience with be described. Instructor permission required. behavior, and rate versus temporal codes. Instructor permission is Prerequisite(s): BME 505 with min. grade of C and BME 503 with required. min. grade of C Lecture: 3 Lab: 0 Credits: 3 Lecture: 2 Lab: 0 Credits: 2 Biomedical Engineering (BME) 7

BME 516 BME 522 Biotechnology for Engineers Mathematical Methods in Biomedical Engineering This course will provide students opportunity to learn about the Graduate standing in BME or consent of instructor This course is field of biotechnology and how to apply engineering principles to an introductory graduate level course that integrates mathematical biological systems and living organisms for betterment of medicines and computational tools that address directly the needs of as well as agricultural products. The course covers the introduction biomedical engineers. The topics covered include the mathematics to biotechnology with information about cell and molecular biology, of diffusion, pharmacokinetic models, biological fluid mechanics, the role of enzyme and growth kinetics, media preparations for cell and biosignal representations and analysis. The use of MATLAB culture and various chromatographic techniques, and antibiotics will be emphasized for numerically solving problems of practical and its role in secondary metabolic production. Biological effluent relevance. treatment and regulatory issues to obtain FDA will be taught. Lecture: 3 Lab: 0 Credits: 3 Instructor permission is required. Lecture: 3 Lab: 0 Credits: 3 BME 523 Cell Biomechanics: Principles and Biological Processes BME 517 This course will provide students an opportunity to learn about Technologies for Treatment of Diabetes mechanical forces that develop in the human body and how they Study of physiological control systems and engineering of external can influence cell functions in a range of biological processes control of biological systems by focusing on an endocrine system from embryogenesis, wound healing, and regenerative medicine disorder -- diabetes. The effects of type 1 diabetes on glucose to pathological conditions such as cancer invasion. Examples of homeostasis and various treatment technologies for regulation research methods for investigating cell biomechanics in various of glucose concentration. Development of mathematical models biological systems will be discussed. Permission of instructor is describing the dynamics of glucose and insulin concentration required. variations, blood glucose concentration measurement and inference Lecture: 3 Lab: 0 Credits: 3 techniques, insulin pumps, and artificial pancreas systems. Lecture: 3 Lab: 0 Credits: 3 BME 524 Quantitative Aspects of Cell andTissue Engineering BME 518 This course is designed to cover fundamentals of cell and Reaction Kinetics for Biomedical Engineering tissue engineering from a quantitative perspective. Topics This course is an introduction to the fundamentals of chemical addressed include elements of tissue development, cell growth kinetics. Analysis of rate data; single and multiple reaction and differentiation, cell adhesion, migration, molecular and cellular schemes. Biomedical topics include biological systems, enzymatic transport in tissues and polymeric hydrogels for tissue engineering pathways, enzyme and receptor-ligand kinetics, pharmacokinetics, and drug delivery applications. heterogeneous reactions, microbial cell growth and product Lecture: 3 Lab: 0 Credits: 3 formation, and the design and analysis of biological reactors. Corequisite(s): BME 482 BME 525 Prerequisite(s): BME 301 and MATH 252 and BME 335 Introduction to Medical Devices, BioMEMS and Microfluidics Lecture: 3 Lab: 0 Credits: 3 This course will present fundamentals and applications of medical devices, BioMEMS, and microfluidic technologies for applications BME 519 in the broad health and biomedical engineering. It will provide Cardiovascular Fluid Mechanics a broad view of the general field and a knowledge of relevant Anatomy of the cardiovascular system. Scaling principles. Lumped fabrication methods and analysis techniques. Fabrication and parameter, one-dimensional linear and nonlinear wave propagation, analytical techniques, interfacing with biological materials, and and three-dimensional modeling techniques applied to simulate techniques for analyte detection will be emphasized. The course will blood flow in the cardiovascular system. Steady and pulsatile flow include individual projects and critical paper reviews in which each in rigid and elastic tubes. Form and function of blood, blood vessels, student will be encouraged to master basic concepts in design and and the heart from an engineering perspective. Sensing, feedback, fabrication for devices for specific applications. and control of the circulation. Includes a student project. Lecture: 3 Lab: 0 Credits: 3 Lecture: 3 Lab: 0 Credits: 3 BME 526 BME 521 Advanced Biomedical Engineering Design Medical Imaging This course aims to educate students on project definition, and Study of modern technology for medical imaging. Theory and on the design, development, and technology transfer of potential operation of CAT, SPECT, PET, MRI, X-ray and echo imaging biomedical products in the context of the student's major capstone modalities. project. Students will learn best practices for designing a marketable Lecture: 3 Lab: 0 Credits: 3 medical device, including the design process from the clinical problem definition through prototype and clinical testing to market readiness. Permission from instructor is required. Lecture: 3 Lab: 0 Credits: 3 8 Biomedical Engineering (BME)

BME 527 BME 533 Extracellular Matrix Biology Biostatistics This course is a the same as the BME 427 Extracellular Matrix This course is designed to cover the tools and techniques of Biology course that has been approved for banner listing for modern statistics with specific applications to biomedical and Summer 2020. BME527 is the same class to extend this course to clinical research. Both parametric and nonparametric analysis will graduate students. The Extra Cellular Matrix (ECM) is that which be presented. Descriptive statistics will be discussed although connects cells in tissues and provides much of the organization emphasis is on inferential statistics and experimental design. and support in almost every tissue and or organ system of the Lecture: 3 Lab: 0 Credits: 3 body. Thus the aim of this course is to give students insights into ECM biology and its relevance to modern medicine and biomedical BME 535 (tissue) engineering. A significant portion of working population Magnetic Resonance Imaging is suffering from ECM-related maladies, and the focus of research This is an introduction to the Physics and technology of magnetic has shifted into creating ECM implants. The ECM implant market resonance imaging (MRI). the topics that are covered include: is growing rapidly. For instance, the collagen meniscus implant basic MR physics, source of signal, signal acquisition, pulse market was reported to be at $308.6 million in 20181. Understanding sequences, hardware, artifacts, spectroscopy, and advanced imaging the implications of the molecular biology of ECM to feed into techniques. Instructor permission required. this research is highly relevant for students considering careers Lecture: 3 Lab: 0 Credits: 3 (academic and industry) in life sciences in industry, academia and healthcare. Extracellular Matrix (ECM) is a highly complex BME 537 system in mammalian biology responsible for structural support Introduction to Molecular Imaging and functional (biochemical) signals for physiology. Specific amino This course provides an overview of molecular imaging, a acid sequences on the various ECM elements are responsible to subcategory of medical imaging that focuses on noninvasively trigger intra- and extracellular cascades leading to cell division, imaging molecular pathways in living organisms. Topics include proliferation, tissue regeneration, wound healing and inflammation. imaging systems, contrast agents, reporter genes and proteins, This course will focus on the following key concepts: a) Gene tracer kinetic modeling. Preclinical and clinical applications will also expression, structure and function of various ECM proteins and be discussed with an emphasis on cancer and the central nervous complexes and the physiological processes. b) Etiology and the system. molecular progression of diseases caused by abnormalities to Lecture: 3 Lab: 0 Credits: 3 ECM proteins. c) Mechanobiology of various ECM proteins. d) Structure function and mechanical function of ECM interfaces with BME 538 other tissues (muscle, bone, skin etc.) e) Implications for tissue Neuroimaging engineering and development of novel biomimetic and biological This course describes the use of different imaging modalities to ECM implants. study brain function and connectivity. The first part of the course Lecture: 3 Lab: 0 Credits: 3 deals with brain function. It includes an introduction to energy metabolism in the brain, cerebral blood flow, and brain activation. BME 530 It continues with an introduction to magnetic resonance imaging Inverse Problems in Biomedical Imaging (MRI), perfusion-based fMRI, Bold fMRI, fMRI paradigm design and This course will introduce graduate students to the mathematical statistical analysis, introduction to positron emission tomography, theory of inverse problems. Concept from functional analysis will (PET) and studying brain function with PET, introduction to be applied for understanding and characterizing mathematical magneto encephalography (MEG) and studying brain function properties of inverse problems. This will permit for the analysis with MEG. The second part of the deals with brain connectivity. It of the stability and resolution of image reconstruction algorithms includes an introduction to diffusion tensor MRI, explanation of the for various existing and novel biomedical imaging systems. The relationship between the diffusion properties of tissue its structural singular value decomposition (SVD) is introduced and applied for characteristics, and white matter fiber tractography techniques. understanding fundamental properties of imaging systems and Instructor permission required. reconstruction algorithms. Instructor permission required. Lecture: 3 Lab: 0 Credits: 3 Lecture: 3 Lab: 0 Credits: 3 BME 539 BME 532 Advanced Medical Imaging Medical Imaging Science This course introduces advanced clinical imaging modalities, This course is an introduction to basic concepts in medical research imaging techniques, and concepts from image science imaging, such as: receiver operating characteristics, the rose model, and image perception. The first part of the course introduces the point spread function and transfer function, covariance and auto perception of image data by human observers and the visualization covariance, noise, filters, sampling, aliasing, interpolation, and image of brain structure and function. It includes an introduction to registration. Instructor permission required. magnetic resonance imaging (MRI) and a survey of neurological Lecture: 3 Lab: 0 Credits: 3 imaging via functional MRI (fMRI). The second part of the course covers image science, clinical imaging applications, and novel research imaging techniques. It includes an introduction to radiation detection and image quality evaluation, a survey of clinical cases, and an overview of new imaging methods. Lecture: 3 Lab: 0 Credits: 3 Biomedical Engineering (BME) 9

BME 540 BME 552 Wave Physics and Applied Optics for Imaging Scientists Control Systems for Biomedical Engineers This course will introduce students to fundamental concepts Control systems design and analysis in biomedical engineering. in wave physics and the analysis of optical wave fields. These Time and frequency domain analysis, impulse vs. step response, principles will be utilized for understanding existing and novel open vs. closed loop response, stability, adaptive control, system imaging methods that employ coherent radiation. Solutions to modeling. Emphasis is on understanding physiological control inverse scattering and inverse source problems will be derived and systems and the engineering of external control of biological algorithmic realizations of the solutions will be developed. Phase systems. contrast imaging techniques and X-ray imaging systems that employ Lecture: 3 Lab: 0 Credits: 3 coherent radiation will be studied. Instructor permission required. Lecture: 3 Lab: 0 Credits: 3 BME 553 Quantitative Physiology BME 542 The main systems that control the human body functions will be Advanced Concepts in Image Science reviewed to enable the students to understand the individual role of This graduate level course introduces students to fundamental each major functional system as well as the need for the integration concepts in image science that are related to the optimization or coordination of the activities of the various systems. Students will and evaluation of biomedical imaging systems. Topics covered implement physiological models using Matlab. include: deterministic descriptions of imaging systems, stochastic Prerequisite(s): BIOL 453 or BIOL 430 descriptions of imaging systems, statistical decision theory, and Lecture: 3 Lab: 0 Credits: 3 objective assessment of image quality. Prerequisite(s): BME 532 with min. grade of C and BME 530 with BME 560 min. grade of C Methods in Biomedical Data Science Lecture: 3 Lab: 0 Credits: 3 The course provides an overview of predictive and descriptive statistical modeling methods for large biomedical datasets. BME 543 Building on undergraduate-level knowledge of statistics, the course Bioinstrumentation and Electronics introduces Bayes and information theory, develops from these Principles of circuit analysis are applied to typical transducer modeling algorithms and provides a series of biomedical application and signal recording situations found in biomedical engineering. areas. Methods include meta-analytic techniques, linear and non- Basic electrical and electronic circuit theory is reviewed with an linear dimensionality reduction, traditional “non-deep” predictive emphasis on biomedical measurement applications. a special topic tools (e.g. perceptron, support vector machines, logistic regression, is individually studied by the student and presented to the class decision trees, boosting, etc.), and some applications of deep neural electrical physics class or basic circuits. networks. Application areas may include medical imaging (e.g. Lecture: 3 Lab: 0 Credits: 3 image segmentation), EEG and ECG signal analysis (e.g. anomaly detection), genetics (e.g. imputation methods, polygenic risk score BME 545 computation, cell-free DNA analysis, etc.). Each course module Quantitative Neural Function involves analysis of real data using existing modeling libraries Computational approach to basic neural modeling and function, and students’ own implementation. The predictive results may be including cable theory, ion channels, presynaptic potentials, compared to the state-of-the-art for each example dataset to assess stimulation thresholds, and nerve blocking techniques. Synaptic the usefulness of the models. (3-0-3) function is examined at the fundamental level. Prerequisite(s): (MATH 225 or BME 433 or CHE 426) and (MATH 332 Prerequisite(s): BME 453 with min. grade of C or BME 553* with min. or MATH 333) grade of C, An asterisk (*) designates a course which may be taken Lecture: 3 Lab: 0 Credits: 3 concurrently. Lecture: 3 Lab: 0 Credits: 3 BME 575 Neuromechanics of Human Movement BME 551 This course will explore how we control movement of our Physiological Signal Processing and Control Theory extremities, with concepts drawn from mechanics and This is the first of a 2 part course co-taught at IIT and the University neurophysiology. The progression from neurological signals to of Chicago. essential elements of signal processing and control muscle activation and resulting movement of the hand or foot will theory as it is applied to physiological systems will be covered. be modeled, starting at the periphery and moving back toward the Part I will cover data acquisition and sampling, Laplace and central nervous system. Biomechanics of the limbs will be modeled Fourier transforms, filtering, time and frequency domains, system using dynamic simulation software (Working Model) which will be descriptions and lumped vs. distributed parameters. Students will driven by a neural controller, implemented in MATLAB. Issues related use Mat lab to test concepts presented in class. to sensory feedback and redundancy will be addresses. Lecture: 2 Lab: 0 Credits: 2 Lecture: 3 Lab: 0 Credits: 3 10 Biomedical Engineering (BME)

BME 581 BME 691 Fluid Mechanics for Biomedical Engineers Research and Thesis PHD This course is primarily focused on the development of theoretical Research and Thesis for PhD degree. (variable credit) and experimental principles necessary for the delineation of fluid Credit: Variable flow in various in vitro chambers and the cardiovascular system. Its content will primarily deal with the basic concepts of flow in various geometries, the heterogeneous nature of blood and the application of such principles in flow chambers designed to expose blood elements to defined flow conditions. The relationship to flow in the normal and diseased vascular system will also be considered. A basic Fluid Dynamics Course is recommended. Instructor permission required. Prerequisite(s): BME 500 with min. grade of C Lecture: 3 Lab: 0 Credits: 3

BME 582 Advanced Mass Transport for Biomedical Engineers This course is primarily focused on the development of theoretical and mathematical principles necessary for the delineation of mass transport processes in biological & medical systems. The content includes heterogeneous reactions that occur at or in the vicinity of cells or vascular structures under applied laminar flow and transport across cell membranes and within tissues. Lecture: 3 Lab: 0 Credits: 3

BME 585 Computational Models of the Human Cardiovascular System This course will focus on the use of computational fluid dynamics for the modeling and analysis of the human cardiovascular system. The course will cover both computational methods for fluid dynamics and biomedical aspects of the human cardiovascular system. Computer models for the simulation and analysis of hemodynamic phenomena will be developed. Requires an Introductory fluid dynamics. Lecture: 3 Lab: 0 Credits: 3

BME 591 Research and Thesis for Master of Science Degree Research and thesis for master of science degree students. Instructor permission required. Credit: Variable

BME 594 Special Projects Special projects. Credit: Variable

BME 595 Seminar in Biomedical Engineering Current research and development topics in biomedical engineering as presented by outside speakers, faculty and advanced students. Lecture: 0 Lab: 3 Credits: 3

BME 597 Special Problems Special problems. Credit: Variable