Graduate Programs

Spring Term Schedule

Spring 2022

Number	Title	Instructor	Time
BME 404-1 Computational Methods Jong-Hoon Nam MW 4:50PM - 6:05PM
The course deals with computational methods to analytically intractable mathematical problems in biological research. For the first half of the course, general numerical analysis topics are reviewed such as linear algebra, ODE and PDE. Through homework assignments, students write their own computer code. Sufficient sample solutions are given to practice various numerical methods within limited time. The rest of the course is comprised of case studies and projects. Examples of computational analyses are drawn from life science problems such as biodynamics of human loco motion, ion channel kinetics, ionic diffusion, and finite element analysis of cells/tissues. For final project, students bring their own research problems, express them in mathematical equations, solve them using custom written computer programs and interpret the solutions. Prerequisites: Fundamental linear algebra, ordinary differential equations, some experience with MatLAB. Location Wegmans Room 1005 (MW 4:50PM - 6:05PM)
BME 412-1 Visco in Bio Tissues Mark Buckley TR 9:40AM - 10:55AM
Viscoelastic materials have the capacity to both store and dissipate energy. As a result, properly describing their mechanical behavior lies outside the scope of both solid mechanics and fluid mechanics. This course will develop constitutive relations and strategies for solving boundary value problems in linear viscoelastic materials. In addition, the closely-related biphasic theory for fluid-filled porous solids will be introduced. An emphasis will be placed on applications to cartilage, tendon, ligament, muscle, blood vessels, and other biological tissues. Advanced topics including non-linear viscoelasticity, composite viscoelasticity and physical mechanisms of viscoelasticity will be surveyed. Preerequisites: ME225 or CHE243; ME226 or BME201 Location Hylan Building Room 101 (TR 9:40AM - 10:55AM)
BME 413-1 Selected Topics in Augmented and Virtual Reality Andrew White; Michele Rucci; Zhen Bai MW 10:25AM - 11:40AM
This is the second course offered as part of the PhD training program on augmented and virtual reality. It builds on the first course, Introduction to Augmented and Virtual Reality (AR/VR). The goal of the course is to provide exposure to problems in the AR/VR domain addressed by various disciplines. The course consists of three one-month long modules in a semester. Modules engage students in particular aspects of AR/VR or hands-on experience on AR/VR. Modules to be offered in various years include: fundamentals of optics for AR/VR; AR/VR in the silicon; foundations of visual perception in the context of AR/VR; computer audition and acoustic rendering; measuring the human brain; deep learning and visual recognition for AR/VR; brain-computer interfacing in a virtual environment; 3D interfaces and interaction; AR/VR for collaborative education & professional training. In Spring 2022, the following three modules will be offered: 1) Foundations of visual perception in the context of AR/VR (Prof. Michele Rucci). The development of AR/VR systems requires understanding of the dynamics and constraints of human visual functions. This course module is designed to provide students with interdisciplinary background and a solid foundation on visual perception. Topics covered will include the nature of light in the environment, the physical properties of the eye, the structure and function of the visual nervous system, the visual functions of humans and other animals, and selected topics in computer vision and artificial neural networks. The module will study visual perception in AR/VR with an interdisciplinary brain sciences perspective, and will appeal to students with diverse backgrounds. It will integrate lectures with demonstrations of visual phenomena. It will also introduce analytic tools to study visual perception. 2) AR/VR for collaborative education & professional training (Prof. Andrew White). This module will study AR/VR as a collaborative education or professional training tool. AR/VR is a powerful tool for education because it allows students to visualize and interact with normally inaccessible concepts such as quantum mechanics and microscopic systems. The following principles will be taught: using AR/VR as a scaffolding to improve learning, human-computer interaction in AR/VR, and assessing learning in an AR/VR environment. This module will be taught from a systems-level point of view and will cover technical topics such as shared coordinate spaces, simulating a shared virtual environment, and latency and its effect on perception. This module is built upon lessons learned from the use of a tactile, collaborative AR system curriculum in the Chemical Engineering Department which teaches chemical reaction engineering. 3) 3D interfaces and interaction (Prof. Zhen Bai). Seamless embodiment in 3D space is the essential characteristic that distinguishes AR/VR systems from conventional graphical user interfaces. The strong sense of embodiment is established through 3D visualization and interaction, which in turn are the building blocks of AR/VR applications. This module introduces state-of-the-art technologies for developing immersive and interactive AR/VR systems that support mobile, social, and communicative natures of people’s everyday life. Students will obtain hands-on programming experience with emerging AR/VR development toolkits for mobile and head-mounted display platforms. Students will explore methods for creating, visualizing, and interacting with meaningful contents embedded in virtual and physical spaces. INSTRUCTORS: Michele Rucci, Andrew White, and Zhen Bai prerequisites: ECE 410 or OPT 410 or BME 410 or NSCI 415 or CSC 413 or CVSC 534 Location Todd Union Room 202 (MW 10:25AM - 11:40AM)
BME 425-1 Human Neurophys Measurement Ross Maddox TR 9:40AM - 10:55AM
This course introduces students to studies of human brain function using non-invasive methods, including electroencephalography, magnetoencephalography, functional magnetic resonance imaging, electrocorticography. It will focus on experimental paradigms and data analysis in the time and frequency domains. Neural encoding and decoding models and applications to brain-computer interfaces will also be discussed. Course will be a mixed format, with lectures on Tuesdays and labs on (most) Thursdays. Lab exercises will be based around analyzing real data from human subjects. Prerequisites: BME 230 or similar class in signals and systems or permission of instructor. Location Wegmans Room 1005 (TR 9:40AM - 10:55AM)
BME 432-1 FDA & IP Commercialization Joan Adamo M 3:25PM - 4:40PM
This interactive course focuses on Intellectual Property (IP) and FDA regulatory pathways for medical innovations. Emphasis will be placed on how knowledge of IP protection and evaluation, and regulatory barriers can optimize design, testing and commercialization strategies. Building on BME431 material, students will learn about the processes and barriers to bringing medical products through clinical trials. Instruction will include lectures, case studies, guest speakers and integrated assignments that will ask students to explore examples of IP and regulatory challenges, successes and failures. Lectures on regulatory and IP topics will alternate so students can appreciate the difficulty presented by balancing these two challenges in the innovation process. Some assignments may be tailored to individual student's research, design or work concentration areas. A project conducted in partnership with the FDA will provide students an opportunity to submit a mock pre-submission to the FDA for review and feedback. Location Helen Wood Hall Room 1W501 (M 3:25PM - 4:40PM)
BME 438-3 Intro to Quality Engineering Amy Lerner MW 11:50AM - 1:05PM
Concepts, tools and techniques for quality engineering in product design and statistical process control, including design of experiments, RCA, FMEA and measurement systems. Class meets January 12 - March 16, 2022. Prerequisite: Basic understanding of statistical methods. Location Dewey Room 2110E (MW 11:50AM - 1:05PM)
BME 438-4 Intro to Quality Engineering - REC Amy Lerner R 3:25PM - 4:40PM
Concepts, tools and techniques for quality engineering in product design and statistical process control, including design of experiments, RCA, FMEA and measurement systems. Class meets January 12 - March 16, 2022. Offered alternate semesters. Prerequisite: Basic understanding of statistical methods. Location Harkness Room 114 (R 3:25PM - 4:40PM)
BME 438-5 Intro to Quality Engineering - REC Amy Lerner F 9:00AM - 10:15AM
Concepts, tools and techniques for quality engineering in product design and statistical process control, including design of experiments, RCA, FMEA and measurement systems. Class meets January 15 - March 16, 2022. Prerequisite: Basic understanding of statistical methods. Location Harkness Room 114 (F 9:00AM - 10:15AM)
BME 442-1 Microbiomechanics James McGrath WF 9:00AM - 10:15AM
This course teaches the fundamental and applied science of biomedical microfluidic devices with an emphasis on applications important for cell culture, separations, and sensors. The first half focuses on the basic principles of diffusion and fluids while the second half teaches COMSOL modeling, animation of device operation, and microfabrication of devices. In the final two weeks of the course, each student builds a unique microfluidic system under the mentorship of faculty, staff or advanced graduate students. Enrollment is limited. Prerequisite: Permission of Instructor. Location Hylan Building Room 306 (WF 9:00AM - 10:15AM)
BME 451-1 Biomedical Ultrasound Diane Dalecki TR 3:25PM - 4:40PM
The physical basis for the use of high-frequency sound in medicine (diagnosis, therapy, and surgery) and biology. Topics include acoustic properties of tissues, sound propagation (both linear and nonlinear) in tissues, interactions of ultrasound with gas bodies (acoustic cavitation and contrast agents), thermal and non-thermal biological effects of ultrasound, ultrasonography, dosimetry, hyperthermia and lithotripsy. Graduate students will have extra assignments. Prerequisites: Math 164, Math 165, Physics 122 or Permission of instructor. Location Harkness Room 210 (TR 3:25PM - 4:40PM)
BME 459-1 Applied Human Anatomy Martha Gdowski MW 2:00PM - 3:15PM
This course analyzes the structural composition of the human body from cellular to organ levels. The goal is to provide a foundation in human anatomy appropriate for students interested in the bioscience and health care professions (e.g. nursing, physical therapy, medicine, bioengineering). Learning objectives will be achieved through a combination of lecture and hands-on (laboratory) approaches, reinforced by clinical examples and analysis of how biomedical devices interface with anatomical structures. In addition, students will participate in small group discussions of clinical case studies, make group presentations of topic appropriate biomedical devices, and prepare a term paper on the subject of their choice selected from a list of topics generated by the instructor. Prerequisite: Any introductory biology course. Location (MW 2:00PM - 3:15PM)
BME 459-2 Applied Human Anatomy LAB Martha Gdowski R 4:50PM - 6:05PM
This course analyzes the structural composition of the human body from cellular to organ levels. The goal is to provide a foundation in human anatomy appropriate for students interested in the bioscience and health care professions (e.g. nursing, physical therapy, medicine, bioengineering). Learning objectives will be achieved through a combination of lecture and hands-on (laboratory) approaches, reinforced by clinical examples and analysis of how biomedical devices interface with anatomical structures. In addition, students will participate in small group discussions of clinical case studies, make group presentations of topic appropriate biomedical devices, and prepare a term paper on the subject of their choice selected from a list of topics generated by the instructor. Prerequisite: Any introductory biology course. Location S & Gg Wing/smd Room 58526 (R 4:50PM - 6:05PM)
BME 459-3 Applied Human Anatomy REC Martha Gdowski T 12:30PM - 2:00PM
This course analyzes the structural composition of the human body from cellular to organ levels. The goal is to provide a foundation in human anatomy appropriate for students interested in the bioscience and health care professions (e.g. nursing, physical therapy, medicine, bioengineering). Learning objectives will be achieved through a combination of lecture and hands-on (laboratory) approaches, reinforced by clinical examples and analysis of how biomedical devices interface with anatomical structures. In addition, students will participate in small group discussions of clinical case studies, make group presentations of topic appropriate biomedical devices, and prepare a term paper on the subject of their choice selected from a list of topics generated by the instructor. Prerequisite: any introductory biology course. Location S & Gg Wing/smd Room 46912 (T 12:30PM - 2:00PM)
BME 462-1 Cell & Tissue Engineering Hani Awad; Kanika Vats TR 11:05AM - 12:20PM
This course teaches the principles of modern cell and tissue engineering with a focus on understanding and manipulating the interactions between cells and their environment. After a brief overview of Cell and Tissue Engineering, the course covers 5 areas of the field. These are: 1) Physiology for Tissue Engineering; 2) Bioreactors and biomolecule production; 3) Materials for Tissue Engineering; 4) Cell Cultures and bioreactors and 5) Drug Delivery and Drug Discovery. Within each of these topics the emphasis is on analytical skills and instructors will assume knowledge of chemistry, mass transfer, fluid mechanics, thermodynamics and physiology consistent with the Cell and Tissue Engineering Track in BME. In a term project, graduate students must identify a technological need and present orally and in writing a proposal to meet the need. Must register for LAB and REC when registering for course. Prerequisites: BME 260, CHE225 (or ME123), CHE243 (or ME225), CHE244 and one of the following Cell Biology courses: BME211, BME411, BIO202 or BIO210; or permission of instructor. Location Harkness Room 210 (TR 11:05AM - 12:20PM)
BME 462-3 Cell & Tissue Engineering REC Hani Awad M 4:00PM - 6:00PM
This course teaches the principles of modern cell and tissue engineering with a focus on understanding and manipulating the interactions between cells and their environment. After a brief overview of Cell and Tissue Engineering, the course covers 5 areas of the field. These are: 1) Physiology for Tissue Engineering; 2) Bioreactors and biomolecule production; 3) Materials for Tissue Engineering; 4) Cell Cultures and bioreactors and 5) Drug Delivery and Drug Discovery. Within each of these topics the emphasis is on analytical skills and instructors will assume knowledge of chemistry, mass transfer, fluid mechanics, thermodynamics and physiology consistent with the Cell and Tissue Engineering Track in BME. In a term project, graduate students must identify a technological need and present orally and in writing a proposal to meet the need. Prerequisites: :BME 260, CHE225 (or ME123), CHE243 (or ME225), CHE244 and one of the following Cell Biology courses: BME211, BME411, BIO202 or BIO210; or permission of instructor. Location Gavett Hall Room 310 (M 4:00PM - 6:00PM)
BME 467-1 Models & Simulations of BME Systems Laurel Carney TR 2:00PM - 3:15PM
Introduction to analytical modeling and computational simulations of systems. Examples will include cardiovascular, respiratory, muscle, neural and population models. Analytical models for several physiological systems will be studied, and simulations will be written in Matlab. Prerequisites: BME221 and BME230 or permission of instructor. Location Hylan Building Room 101 (TR 2:00PM - 3:15PM)
BME 467-2 Models & Simulations of BME Systems - REC Laurel Carney F 3:25PM - 4:40PM
Introduction to analytical modeling and computational simulations of systems. Examples will include cardiovascular, respiratory, muscle, neural and population models. Analytical models for several physiological systems will be studied, and simulations will be written in Matlab. Prerequisites: BME221 and BME230 or permission of instructor. Location Hylan Building Room 305 (F 3:25PM - 4:40PM)
BME 468-1 Struct&Anlysis of Biomolecl Whasil Lee TR 2:00PM - 3:15PM
This course will introduce student to the principles of protein & DNA structure and function; fundamental principles of protein folding domains, DNA structures, the spatial and conceptual relationships of biomolecules, role of amino acids mutation, the structure of biomolecules in relation to their functions, and mutation induced abnormal functions, which ay be linked directly to human diseases.The course will be taught using multiple instructional methods including lectures, labs using the open course program Visual Molecular Dynamics (VMD), and oral presentations with an associated critical discussion. Course materials will be posted on Blackboard. Seniors welcome. Prerequisites: BIO110 or introductory biology course. Location Goergen Hall Room 102 (TR 2:00PM - 3:15PM)
BME 472-1 Opt Microscopy in Bio&Med Michael Giacomelli TR 11:05AM - 12:20PM
This course will review the engineering of optical system for biomedical microscopy by exploring widely used biomedical imaging systems such as confocal microscopy, multiphoton microscopy and optical coherent tomography among others. These techniques will be introduced in the context of the imaging problems they solve with a goal of giving students a broad, undergraduate level understanding of the constraints and solutions to biomedical microscopy. The graduate version of this course will include additional assignments and be appropriate for graduate students starting out inbiomedical optics. Prerequisites: OPT261 and BME270. Location Goergen Hall Room 110 (TR 11:05AM - 12:20PM)
BME 474-1 Biomedical Sensors, Circuits & Instruments Scott Seidman TR 9:40AM - 10:55AM
Course will cover circuits and sensors used to measure physiological systems at an advanced level. Both signal conditioning and sensor characteristics will be addressed. Topics will include measurement of strain, pressure, flow, temperature, biopotentials, data acquisition, and electrical safety. The laboratory will focus on the practical implementation of electronic devices for biomedical measurements. Prerequisites: BME 210, ECE113 or equivalent, or permission of instructor. Location Lechase Room 124 (TR 9:40AM - 10:55AM)
BME 474-2 Biomedical Sensors, Circuits & Inst - LAB Scott Seidman F 8:00AM - 11:00AM
Course will cover circuits and sensors used to measure physiological systems at an advanced level. Both signal conditioning and sensor characteristics will be addressed. Topics will include measurement of strain, pressure, flow, temperature, biopotentials, data acquisition, and electrical safety. The laboratory will focus on the practical implementation of electronic devices for biomedical measurements. Prerequisites: BME 210, ECE113 or equivalent, or permission of instructor. Location Goergen Hall Room 104 (F 8:00AM - 11:00AM)
BME 495-01 Master's Research in BME Greg Gdowski –
Blank Description
BME 495-02 Master's Research in BME Amy Lerner –
Blank Description
BME 495-03 Master's Research in BME Hani Awad –
Blank Description
BME 495-04 Master's Research in BME Scott Seidman –
Blank Description
BME 495-05 Master's Research in BME Stephen McAleavey –
Blank Description
BME 495-06 Master's Research in BME Lisa DeLouise –
Blank Description
BME 495-07 Master's Research in BME James McGrath –
Blank Description
BME 495-08 Master's Research in BME Mark Buckley –
Blank Description
BME 495-09 Master's Research in BME Anne Luebke –
Blank Description
BME 495-10 Master's Research in BME Geunyoung Yoon –
Blank Description
BME 495-11 Master's Research in BME Benjamin Miller –
Blank Description
BME 495-12 Master's Research in BME Ross Maddox –
Blank Description
BME 495-13 Master's Research in BME Manuel Gomez-Ramirez –
Blank Description
BME 495-14 Master's Research in BME Maiken Nedergaard –
Blank Description
BME 495-15 Master's Research in BME Edmund Lalor –
Blank Description
BME 495-20 Master's Research in BME Chia-Lung Wu –
BME 495 with new Professor Wu added
BME 495-21 Master's Research in BME Xinping Zhang –
BME 495-21 added with Xinping Zhang as the instructor
BME 496-1 Current Research Seminars Diane Dalecki TR 8:15AM - 9:30AM
Blank Description Location Goergen Hall Room 101 (TR 8:15AM - 9:30AM)
BME 589-1 Writing Proposals in BME Anne Luebke; Benjamin Miller T 4:30PM - 5:30PM
This course covers the essential aspects of organization and content for writing formal scientific proposals. Open to second-year Ph.D. candidates. Location Goergen Hall Room 239 (T 4:30PM - 5:30PM)
BME 593-1 Laboratory Rotations in BME Diane Dalecki –
Attend seminars first half of the semester and then students rotate in at least 3 different labs during the first year of graduate study to learn of the diversity of research opportunities for Ph.D. research.
BME 595-01 PhD Research Hani Awad –
Blank Description
BME 595-02 PhD Research Danielle Benoit –
Blank Description
BME 595-03 PhD Research Andrew Berger –
Blank Description
BME 595-04 PhD Research Edward Brown –
Blank Description
BME 595-05 PhD Research Benjamin Miller –
Blank Description
BME 595-06 PhD Research Mark Buckley –
Blank Description
BME 595-07 PhD Research Laurel Carney –
Blank Description
BME 595-08 PhD Research Regine Choe –
Blank Description
BME 595-09 PhD Research Diane Dalecki –
Blank Description
BME 595-10 PhD Research Michael Giacomelli –
Blank Description
BME 595-11 PhD Research Catherine Kuo –
Blank Description
BME 595-12 PhD Research Edmund Lalor –
Blank Description
BME 595-13 PhD Research Whasil Lee –
Blank Description
BME 595-14 PhD Research Anne Luebke –
Blank Description
BME 595-15 PhD Research Ross Maddox –
Blank Description
BME 595-16 PhD Research Stephen McAleavey –
Blank Description
BME 595-17 PhD Research James McGrath –
Blank Description
BME 595-18 PhD Research Jong-Hoon Nam –
Blank Description
BME 595-19 PhD Research Richard Waugh –
Blank Description
BME 595-20 PhD Research Benjamin Crane –
Blank Description
BME 595-21 PhD Research Lisa DeLouise –
Blank Description
BME 595-22 PhD Research Kenneth Henry –
Blank Description
BME 595-23 PhD Research Denise Hocking –
Blank Description
BME 595-24 PhD Research Jennifer Hunter –
Blank Description
BME 595-25 PhD Research Alayna Loiselle –
Blank Description
BME 595-26 PhD Research Marc Schieber –
Blank Description
BME 595-27 PhD Research Edward Schwarz –
Blank Description
BME 595-28 PhD Research David Williams –
Blank Description
BME 595-29 PhD Research Jesse Schallek –
Blank Description
BME 595-30 PhD Research Geunyoung Yoon –
Blank Description
BME 595-31 PhD Research Joe Chakkalakal –
Blank Description
BME 595-32 PhD Research Minsoo Kim –
Blank Description
BME 595-33 PhD Research Maiken Nedergaard –
Blank Description
BME 595-34 PhD Research Eric Small –
Blank Description
BME 595-35 PhD Research Edward Freedman –
Blank Description
BME 595-36 PhD Research Jianhui Zhong –
No description
BME 595-37 PhD Research Angela Glading –
Blank Description
BME 595-38 PhD Research Giovanni Schifitto –
Blank Description
BME 595A-01 PhD Research in Absentia Mark Buckley –
BME 595A-01 for Spring, 2022 under Dr. Buckley
BME 895-1 Cont of Master's Enrollment – –
Blank Description
BME 897-005 Master's Dissertation Chia-Lung Wu –
Masters Dissertation under Professor Chia-Lung Wu
BME 897-01 Master's Dissertation Greg Gdowski –
Blank Description
BME 897-02 Master's Dissertation Amy Lerner –
Blank Description
BME 897-03 Master's Dissertation Ross Maddox –
Blank Description
BME 897-04 Master's Dissertation James McGrath –
Blank Description
BME 897-05 Master's Dissertation Hani Awad –
Blank Description
BME 897-06 Master's Dissertation Scott Seidman –
Blank Description
BME 897-07 Master's Dissertation Lisa DeLouise –
Blank Description
BME 897-08 Master's Dissertation Mark Buckley –
Blank Description
BME 897-09 Master's Dissertation Benjamin Miller –
Blank Description
BME 899-01 Master's Dissertation Hani Awad –
Blank Description
BME 899-02 Master's Dissertation Greg Gdowski –
Blank Description
BME 899-03 Master's Dissertation Amy Lerner –
Blank Description
BME 899-04 Master's Dissertation Scott Seidman –
Blank Description
BME 899-05 Master's Dissertation Ross Maddox –
Blank Description
BME 899-06 Master's Dissertation James McGrath –
Blank Description
BME 899-07 Master's Dissertation Lisa DeLouise –
Blank Description
BME 899-08 Master's Dissertation Stephen McAleavey –
Blank Description
BME 899-09 Master's Dissertation Mark Buckley –
Blank Description
BME 899-1 Master's Dissertation Laurel Carney –
BME 899, Masters Dissertation with Professor Laurel Carney
BME 899-10 Master's Dissertation Benjamin Miller –
Blank Description
BME 899-11 Master's Dissertation Maiken Nedergaard –
Blank Description
BME 995-1 Cont of Doctoral Enrollment – –
Blank Description
BME 997-01 Doctoral Dissertation Hani Awad –
Blank Description
BME 997-02 Doctoral Dissertation Danielle Benoit –
Blank Description
BME 997-03 Doctoral Dissertation Andrew Berger –
Blank Description
BME 997-04 Doctoral Dissertation Edward Brown –
Blank Description
BME 997-05 Doctoral Dissertation Mark Buckley –
Blank Description
BME 997-06 Doctoral Dissertation Laurel Carney –
Blank Description
BME 997-07 Doctoral Dissertation Regine Choe –
Blank Description
BME 997-08 Doctoral Dissertation Diane Dalecki –
Blank Description
BME 997-09 Doctoral Dissertation Michael Giacomelli –
Blank Description
BME 997-10 Doctoral Dissertation Anne Luebke –
Blank Description
BME 997-11 Doctoral Dissertation Edmund Lalor –
Blank Description
BME 997-12 Doctoral Dissertation Catherine Kuo –
Blank Description
BME 997-13 Doctoral Dissertation Whasil Lee –
Blank Description
BME 997-14 Doctoral Dissertation Ross Maddox –
Blank Description
BME 997-15 Doctoral Dissertation Stephen McAleavey –
Blank Description
BME 997-16 Doctoral Dissertation James McGrath –
Blank Description
BME 997-17 Doctoral Dissertation Jong-Hoon Nam –
Blank Description
BME 997-18 Doctoral Dissertation Lisa DeLouise –
Blank Description
BME 997-19 Doctoral Dissertation Kenneth Henry –
Blank Description
BME 997-20 Doctoral Dissertation Denise Hocking –
Blank Description
BME 997-21 Doctoral Dissertation Edward Schwarz –
Blank Description
BME 997-22 Doctoral Dissertation Jesse Schallek –
Blank Description
BME 997-23 Doctoral Dissertation Geunyoung Yoon –
Blank Description
BME 997-24 Doctoral Dissertation Minsoo Kim –
Blank Description
BME 997-25 Doctoral Dissertation Benjamin Miller –
Blank Description
BME 997-26 Doctoral Dissertation Eric Small –
Blank Description
BME 997-27 Doctoral Dissertation Alayna Loiselle –
Blank Description
BME 997-34 Doctoral Dissertation Edward Freedman –
BME 997-34 has been created under Professor Edward Freedman. - jmp
BME 999-01 Doctoral Dissertation Hani Awad –
Blank Description
BME 999-02 Doctoral Dissertation Danielle Benoit –
Blank Description
BME 999-03 Doctoral Dissertation Andrew Berger –
Blank Description
BME 999-04 Doctoral Dissertation Edward Brown –
Blank Description
BME 999-05 Doctoral Dissertation Mark Buckley –
Blank Description
BME 999-06 Doctoral Dissertation Laurel Carney –
Blank Description
BME 999-07 Doctoral Dissertation Regine Choe –
Blank Description
BME 999-08 Doctoral Dissertation Diane Dalecki –
Blank Description
BME 999-09 Doctoral Dissertation Michael Giacomelli –
Blank Description
BME 999-10 Doctoral Dissertation Anne Luebke –
Blank Description
BME 999-11 Doctoral Dissertation Edmund Lalor –
Blank Description
BME 999-12 Doctoral Dissertation Catherine Kuo –
Blank Description
BME 999-13 Doctoral Dissertation Whasil Lee –
Blank Description
BME 999-14 Doctoral Dissertation Ross Maddox –
Blank Description
BME 999-15 Doctoral Dissertation Stephen McAleavey –
Blank Description
BME 999-16 Doctoral Dissertation James McGrath –
Blank Description
BME 999-17 Doctoral Dissertation Jong-Hoon Nam –
Blank Description
BME 999-18 Doctoral Dissertation Richard Waugh –
Blank Description
BME 999-19 Doctoral Dissertation Benjamin Crane –
Blank Description
BME 999-20 Doctoral Dissertation Lisa DeLouise –
Blank Description
BME 999-21 Doctoral Dissertation Kenneth Henry –
Blank Description
BME 999-22 Doctoral Dissertation Denise Hocking –
Blank Description
BME 999-23 Doctoral Dissertation Jennifer Hunter –
Blank Description
BME 999-24 Doctoral Dissertation Alayna Loiselle –
Blank Description
BME 999-25 Doctoral Dissertation Marc Schieber –
Blank Description
BME 999-26 Doctoral Dissertation Edward Schwarz –
Blank Description
BME 999-27 Doctoral Dissertation David Williams –
Blank Description
BME 999-28 Doctoral Dissertation Jesse Schallek –
Blank Description
BME 999-29 Doctoral Dissertation Geunyoung Yoon –
Blank Description
BME 999-30 Doctoral Dissertation Joe Chakkalakal –
Blank Description
BME 999-31 Doctoral Dissertation Minsoo Kim –
Blank Description
BME 999-32 Doctoral Dissertation Maiken Nedergaard –
Blank Description
BME 999-33 Doctoral Dissertation Eric Small –
Blank Description
BME 999-34 Doctoral Dissertation Edward Freedman –
Blank Description
BME 999-35 Doctoral Dissertation Benjamin Miller –
Blank Description
BME 999A-01 Doctoral Dissertation in Absentia Catherine Kuo –
For PhD Students who are finishing up their studies in a different location as they followed their advisor

Number	Title	Instructor	Time
Monday
BME 432-1 FDA & IP Commercialization Joan Adamo
This interactive course focuses on Intellectual Property (IP) and FDA regulatory pathways for medical innovations. Emphasis will be placed on how knowledge of IP protection and evaluation, and regulatory barriers can optimize design, testing and commercialization strategies. Building on BME431 material, students will learn about the processes and barriers to bringing medical products through clinical trials. Instruction will include lectures, case studies, guest speakers and integrated assignments that will ask students to explore examples of IP and regulatory challenges, successes and failures. Lectures on regulatory and IP topics will alternate so students can appreciate the difficulty presented by balancing these two challenges in the innovation process. Some assignments may be tailored to individual student's research, design or work concentration areas. A project conducted in partnership with the FDA will provide students an opportunity to submit a mock pre-submission to the FDA for review and feedback.
BME 462-3 Cell & Tissue Engineering REC Hani Awad
This course teaches the principles of modern cell and tissue engineering with a focus on understanding and manipulating the interactions between cells and their environment. After a brief overview of Cell and Tissue Engineering, the course covers 5 areas of the field. These are: 1) Physiology for Tissue Engineering; 2) Bioreactors and biomolecule production; 3) Materials for Tissue Engineering; 4) Cell Cultures and bioreactors and 5) Drug Delivery and Drug Discovery. Within each of these topics the emphasis is on analytical skills and instructors will assume knowledge of chemistry, mass transfer, fluid mechanics, thermodynamics and physiology consistent with the Cell and Tissue Engineering Track in BME. In a term project, graduate students must identify a technological need and present orally and in writing a proposal to meet the need. Prerequisites: :BME 260, CHE225 (or ME123), CHE243 (or ME225), CHE244 and one of the following Cell Biology courses: BME211, BME411, BIO202 or BIO210; or permission of instructor.
Monday and Wednesday
BME 413-1 Selected Topics in Augmented and Virtual Reality Andrew White; Michele Rucci; Zhen Bai
This is the second course offered as part of the PhD training program on augmented and virtual reality. It builds on the first course, Introduction to Augmented and Virtual Reality (AR/VR). The goal of the course is to provide exposure to problems in the AR/VR domain addressed by various disciplines. The course consists of three one-month long modules in a semester. Modules engage students in particular aspects of AR/VR or hands-on experience on AR/VR. Modules to be offered in various years include: fundamentals of optics for AR/VR; AR/VR in the silicon; foundations of visual perception in the context of AR/VR; computer audition and acoustic rendering; measuring the human brain; deep learning and visual recognition for AR/VR; brain-computer interfacing in a virtual environment; 3D interfaces and interaction; AR/VR for collaborative education & professional training. In Spring 2022, the following three modules will be offered: 1) Foundations of visual perception in the context of AR/VR (Prof. Michele Rucci). The development of AR/VR systems requires understanding of the dynamics and constraints of human visual functions. This course module is designed to provide students with interdisciplinary background and a solid foundation on visual perception. Topics covered will include the nature of light in the environment, the physical properties of the eye, the structure and function of the visual nervous system, the visual functions of humans and other animals, and selected topics in computer vision and artificial neural networks. The module will study visual perception in AR/VR with an interdisciplinary brain sciences perspective, and will appeal to students with diverse backgrounds. It will integrate lectures with demonstrations of visual phenomena. It will also introduce analytic tools to study visual perception. 2) AR/VR for collaborative education & professional training (Prof. Andrew White). This module will study AR/VR as a collaborative education or professional training tool. AR/VR is a powerful tool for education because it allows students to visualize and interact with normally inaccessible concepts such as quantum mechanics and microscopic systems. The following principles will be taught: using AR/VR as a scaffolding to improve learning, human-computer interaction in AR/VR, and assessing learning in an AR/VR environment. This module will be taught from a systems-level point of view and will cover technical topics such as shared coordinate spaces, simulating a shared virtual environment, and latency and its effect on perception. This module is built upon lessons learned from the use of a tactile, collaborative AR system curriculum in the Chemical Engineering Department which teaches chemical reaction engineering. 3) 3D interfaces and interaction (Prof. Zhen Bai). Seamless embodiment in 3D space is the essential characteristic that distinguishes AR/VR systems from conventional graphical user interfaces. The strong sense of embodiment is established through 3D visualization and interaction, which in turn are the building blocks of AR/VR applications. This module introduces state-of-the-art technologies for developing immersive and interactive AR/VR systems that support mobile, social, and communicative natures of people’s everyday life. Students will obtain hands-on programming experience with emerging AR/VR development toolkits for mobile and head-mounted display platforms. Students will explore methods for creating, visualizing, and interacting with meaningful contents embedded in virtual and physical spaces. INSTRUCTORS: Michele Rucci, Andrew White, and Zhen Bai prerequisites: ECE 410 or OPT 410 or BME 410 or NSCI 415 or CSC 413 or CVSC 534
BME 438-3 Intro to Quality Engineering Amy Lerner
Concepts, tools and techniques for quality engineering in product design and statistical process control, including design of experiments, RCA, FMEA and measurement systems. Class meets January 12 - March 16, 2022. Prerequisite: Basic understanding of statistical methods.
BME 459-1 Applied Human Anatomy Martha Gdowski
This course analyzes the structural composition of the human body from cellular to organ levels. The goal is to provide a foundation in human anatomy appropriate for students interested in the bioscience and health care professions (e.g. nursing, physical therapy, medicine, bioengineering). Learning objectives will be achieved through a combination of lecture and hands-on (laboratory) approaches, reinforced by clinical examples and analysis of how biomedical devices interface with anatomical structures. In addition, students will participate in small group discussions of clinical case studies, make group presentations of topic appropriate biomedical devices, and prepare a term paper on the subject of their choice selected from a list of topics generated by the instructor. Prerequisite: Any introductory biology course.
BME 404-1 Computational Methods Jong-Hoon Nam
The course deals with computational methods to analytically intractable mathematical problems in biological research. For the first half of the course, general numerical analysis topics are reviewed such as linear algebra, ODE and PDE. Through homework assignments, students write their own computer code. Sufficient sample solutions are given to practice various numerical methods within limited time. The rest of the course is comprised of case studies and projects. Examples of computational analyses are drawn from life science problems such as biodynamics of human loco motion, ion channel kinetics, ionic diffusion, and finite element analysis of cells/tissues. For final project, students bring their own research problems, express them in mathematical equations, solve them using custom written computer programs and interpret the solutions. Prerequisites: Fundamental linear algebra, ordinary differential equations, some experience with MatLAB.
Monday, Wednesday, and Friday
Tuesday
BME 459-3 Applied Human Anatomy REC Martha Gdowski
This course analyzes the structural composition of the human body from cellular to organ levels. The goal is to provide a foundation in human anatomy appropriate for students interested in the bioscience and health care professions (e.g. nursing, physical therapy, medicine, bioengineering). Learning objectives will be achieved through a combination of lecture and hands-on (laboratory) approaches, reinforced by clinical examples and analysis of how biomedical devices interface with anatomical structures. In addition, students will participate in small group discussions of clinical case studies, make group presentations of topic appropriate biomedical devices, and prepare a term paper on the subject of their choice selected from a list of topics generated by the instructor. Prerequisite: any introductory biology course.
BME 589-1 Writing Proposals in BME Anne Luebke; Benjamin Miller
This course covers the essential aspects of organization and content for writing formal scientific proposals. Open to second-year Ph.D. candidates.
Tuesday and Thursday
BME 496-1 Current Research Seminars Diane Dalecki
Blank Description
BME 474-1 Biomedical Sensors, Circuits & Instruments Scott Seidman
Course will cover circuits and sensors used to measure physiological systems at an advanced level. Both signal conditioning and sensor characteristics will be addressed. Topics will include measurement of strain, pressure, flow, temperature, biopotentials, data acquisition, and electrical safety. The laboratory will focus on the practical implementation of electronic devices for biomedical measurements. Prerequisites: BME 210, ECE113 or equivalent, or permission of instructor.
BME 425-1 Human Neurophys Measurement Ross Maddox
This course introduces students to studies of human brain function using non-invasive methods, including electroencephalography, magnetoencephalography, functional magnetic resonance imaging, electrocorticography. It will focus on experimental paradigms and data analysis in the time and frequency domains. Neural encoding and decoding models and applications to brain-computer interfaces will also be discussed. Course will be a mixed format, with lectures on Tuesdays and labs on (most) Thursdays. Lab exercises will be based around analyzing real data from human subjects. Prerequisites: BME 230 or similar class in signals and systems or permission of instructor.
BME 412-1 Visco in Bio Tissues Mark Buckley
Viscoelastic materials have the capacity to both store and dissipate energy. As a result, properly describing their mechanical behavior lies outside the scope of both solid mechanics and fluid mechanics. This course will develop constitutive relations and strategies for solving boundary value problems in linear viscoelastic materials. In addition, the closely-related biphasic theory for fluid-filled porous solids will be introduced. An emphasis will be placed on applications to cartilage, tendon, ligament, muscle, blood vessels, and other biological tissues. Advanced topics including non-linear viscoelasticity, composite viscoelasticity and physical mechanisms of viscoelasticity will be surveyed. Preerequisites: ME225 or CHE243; ME226 or BME201
BME 462-1 Cell & Tissue Engineering Hani Awad; Kanika Vats
This course teaches the principles of modern cell and tissue engineering with a focus on understanding and manipulating the interactions between cells and their environment. After a brief overview of Cell and Tissue Engineering, the course covers 5 areas of the field. These are: 1) Physiology for Tissue Engineering; 2) Bioreactors and biomolecule production; 3) Materials for Tissue Engineering; 4) Cell Cultures and bioreactors and 5) Drug Delivery and Drug Discovery. Within each of these topics the emphasis is on analytical skills and instructors will assume knowledge of chemistry, mass transfer, fluid mechanics, thermodynamics and physiology consistent with the Cell and Tissue Engineering Track in BME. In a term project, graduate students must identify a technological need and present orally and in writing a proposal to meet the need. Must register for LAB and REC when registering for course. Prerequisites: BME 260, CHE225 (or ME123), CHE243 (or ME225), CHE244 and one of the following Cell Biology courses: BME211, BME411, BIO202 or BIO210; or permission of instructor.
BME 472-1 Opt Microscopy in Bio&Med Michael Giacomelli
This course will review the engineering of optical system for biomedical microscopy by exploring widely used biomedical imaging systems such as confocal microscopy, multiphoton microscopy and optical coherent tomography among others. These techniques will be introduced in the context of the imaging problems they solve with a goal of giving students a broad, undergraduate level understanding of the constraints and solutions to biomedical microscopy. The graduate version of this course will include additional assignments and be appropriate for graduate students starting out inbiomedical optics. Prerequisites: OPT261 and BME270.
BME 467-1 Models & Simulations of BME Systems Laurel Carney
Introduction to analytical modeling and computational simulations of systems. Examples will include cardiovascular, respiratory, muscle, neural and population models. Analytical models for several physiological systems will be studied, and simulations will be written in Matlab. Prerequisites: BME221 and BME230 or permission of instructor.
BME 468-1 Struct&Anlysis of Biomolecl Whasil Lee
This course will introduce student to the principles of protein & DNA structure and function; fundamental principles of protein folding domains, DNA structures, the spatial and conceptual relationships of biomolecules, role of amino acids mutation, the structure of biomolecules in relation to their functions, and mutation induced abnormal functions, which ay be linked directly to human diseases.The course will be taught using multiple instructional methods including lectures, labs using the open course program Visual Molecular Dynamics (VMD), and oral presentations with an associated critical discussion. Course materials will be posted on Blackboard. Seniors welcome. Prerequisites: BIO110 or introductory biology course.
BME 451-1 Biomedical Ultrasound Diane Dalecki
The physical basis for the use of high-frequency sound in medicine (diagnosis, therapy, and surgery) and biology. Topics include acoustic properties of tissues, sound propagation (both linear and nonlinear) in tissues, interactions of ultrasound with gas bodies (acoustic cavitation and contrast agents), thermal and non-thermal biological effects of ultrasound, ultrasonography, dosimetry, hyperthermia and lithotripsy. Graduate students will have extra assignments. Prerequisites: Math 164, Math 165, Physics 122 or Permission of instructor.
Wednesday
Wednesday and Friday
BME 442-1 Microbiomechanics James McGrath
This course teaches the fundamental and applied science of biomedical microfluidic devices with an emphasis on applications important for cell culture, separations, and sensors. The first half focuses on the basic principles of diffusion and fluids while the second half teaches COMSOL modeling, animation of device operation, and microfabrication of devices. In the final two weeks of the course, each student builds a unique microfluidic system under the mentorship of faculty, staff or advanced graduate students. Enrollment is limited. Prerequisite: Permission of Instructor.
Thursday
BME 438-4 Intro to Quality Engineering - REC Amy Lerner
Concepts, tools and techniques for quality engineering in product design and statistical process control, including design of experiments, RCA, FMEA and measurement systems. Class meets January 12 - March 16, 2022. Offered alternate semesters. Prerequisite: Basic understanding of statistical methods.
BME 459-2 Applied Human Anatomy LAB Martha Gdowski
This course analyzes the structural composition of the human body from cellular to organ levels. The goal is to provide a foundation in human anatomy appropriate for students interested in the bioscience and health care professions (e.g. nursing, physical therapy, medicine, bioengineering). Learning objectives will be achieved through a combination of lecture and hands-on (laboratory) approaches, reinforced by clinical examples and analysis of how biomedical devices interface with anatomical structures. In addition, students will participate in small group discussions of clinical case studies, make group presentations of topic appropriate biomedical devices, and prepare a term paper on the subject of their choice selected from a list of topics generated by the instructor. Prerequisite: Any introductory biology course.
Friday
BME 474-2 Biomedical Sensors, Circuits & Inst - LAB Scott Seidman
Course will cover circuits and sensors used to measure physiological systems at an advanced level. Both signal conditioning and sensor characteristics will be addressed. Topics will include measurement of strain, pressure, flow, temperature, biopotentials, data acquisition, and electrical safety. The laboratory will focus on the practical implementation of electronic devices for biomedical measurements. Prerequisites: BME 210, ECE113 or equivalent, or permission of instructor.
BME 438-5 Intro to Quality Engineering - REC Amy Lerner
Concepts, tools and techniques for quality engineering in product design and statistical process control, including design of experiments, RCA, FMEA and measurement systems. Class meets January 15 - March 16, 2022. Prerequisite: Basic understanding of statistical methods.
BME 467-2 Models & Simulations of BME Systems - REC Laurel Carney
Introduction to analytical modeling and computational simulations of systems. Examples will include cardiovascular, respiratory, muscle, neural and population models. Analytical models for several physiological systems will be studied, and simulations will be written in Matlab. Prerequisites: BME221 and BME230 or permission of instructor.