Department: Bioengineering

Code Name Description
BIOE101 Systems Biology Complex biological behaviors through the integration of computational modeling and molecular biology. Topics: reconstructing biological networks from high-throughput data and knowledge bases. Network properties. Computational modeling of network beha...
BIOE102 Physical Biology of Macromolecules Principles of statistical physics, thermodynamics, and kinetics with applications to molecular biology. Topics include entropy, temperature, chemical forces, enzyme kinetics, free energy and its uses, self assembly, cooperative transitions in macromo...
BIOE103 Systems Physiology and Design Physiology of intact human tissues, organs, and organ systems in health and disease, and bioengineering tools used (or needed) to probe and model these physiological systems. Topics: Clinical physiology, network physiology and system design/plasticit...
BIOE103B Systems Physiology and Design *ONLINE Offering of BIOE 103. This pilot class, BIOE103B, is an entirely online offering with the same content, learning goals, and prerequisites as BIOE 103. Students attend class by watching videos and completing assignments remotely. Students m...
BIOE10SC Needs Finding in Healthcare Are you on an engineering pathway, but trying to decide if opportunities in healthcare might be of interest to you? Or, are you committed to a career in healthcare, but eager to explore how to incorporate technology innovation into your plans? In eit...
BIOE122 BioSecurity and Pandemic Resilience Overview of the most pressing biosecurity issues facing the world today, with a special focus on the COVID-19 pandemic. Critical examination of ways of enhancing biosecurity and pandemic resilience to the current and future pandemics. Examination of...
BIOE123 Bioengineering Systems Prototyping Lab The Bioengineering System Prototyping Laboratory is a fast-paced, team-based system engineering experience, in which teams of 2-3 students design and build a bioengineering-relevant system (e.g., centrifuge) that meets a set of common requirements al...
BIOE131 Ethics in Bioengineering Bioengineering focuses on the development and application of new technologies in the biology and medicine. These technologies often have powerful effects on living systems at the microscopic and macroscopic level. They can provide great benefit to so...
BIOE141A Senior Capstone Design I Lecture/Lab. First course of two-quarter capstone sequence. Team based project introduces students to the process of designing new biological technologies to address societal needs. Topics include methods for validating societal needs, brainstorming,...
BIOE141B Senior Capstone Design II Lecture/Lab. Second course of two-quarter capstone sequence. Team based project introduces students to the process of designing new biological technologies to address societal needs. Emphasis is on implementing and testing the design from the first q...
BIOE150 Biochemical Engineering Combines biological knowledge and methods with quantitative engineering principles. Quantitative review of biochemistry and metabolism as well as recombinant DNA technology and synthetic biology (metabolic engineering). The course begins with a revie...
BIOE158 Soft Matter in Biomedical Devices, Microelectronics, and Everyday Life The relationships between molecular structure, morphology, and the unique physical, chemical, and mechanical behavior of polymers and other types of soft matter are discussed. Topics include methods for preparing synthetic polymers and examination of...
BIOE177 Inventing the Future The famous computer scientist, Alan Kay, once said, "The best way to predict the future is to invent it." As such, we are all responsible for inventing the future we hope we and our descendants will experience. In this highly interactive course, we w...
BIOE190 Design Thinking in Human Performance Research This course will introduce you to research areas in human performance and a framework for planning a research project in the area. The course will enable you to gain experience at identifying compelling research needs, pitching research ideas, desig...
BIOE191 Bioengineering Problems and Experimental Investigation Directed study and research for undergraduates on a subject of mutual interest to student and instructor. Prerequisites: consent of instructor and adviser. (Staff)
BIOE191X Out-of-Department Advanced Research Laboratory in Bioengineering Individual research by arrangement with out-of-department instructors. Credit for 191X is restricted to declared Bioengineering majors pursuing honors and requires department approval. See http://bioengineering.stanford.edu/education/undergraduate.ht...
BIOE193 Interdisciplinary Approaches to Human Health Research For undergraduate students participating in the Stanford ChEM-H Undergraduate Scholars Program. This course will expose students to interdisciplinary research questions and approaches that span chemistry, engineering, biology, and medicine. Focus is...
BIOE199A Inventing Synthetic Biosystems Biology as a technology is burgeoning, leading to diverse cultural, economic, geopolitical, and natural outcomes. Students in this course will learn to step back from the overwhelming immediacy of biotechnology's application and to instead adopt a c...
BIOE201C Diagnostic Devices Lab This course exposes students to the engineering principles and clinical application of medical devices through lectures and hands-on labs, performed in teams of two. Teams take measurements with these devices and fit their data to theory presented in...
BIOE204 Genetic and Epigenetic Engineering This course will cover the fundamental principles of genetic and epigenetic engineering, starting from the key biological discoveries to the current technological applications. We will be dissecting classic literature, formulating our own scientific...
BIOE204 Genetic and Epigenetic Engineering Fundamental principles of genetic and epigenetic engineering, starting from the key biological discoveries to the current technological applications. We will be dissecting classic literature, formulating our own scientific questions, and designing ex...
BIOE209 Mathematical Modeling of Biological Systems The course covers mathematical and computational techniques needed to solve advanced problems encountered in applied bioengineering. Fundamental concepts are presented in the context of their application to biological and physiological problems inclu...
BIOE210 Systems Biology Complex biological behaviors through the integration of computational modeling and molecular biology. Topics: reconstructing biological networks from high-throughput data and knowledge bases. Network properties. Computational modeling of network beha...
BIOE212 Introduction to Biomedical Data Science Research Methodology Capstone Biomedical Data Science experience. Hands-on software building. Student teams conceive, design, specify, implement, evaluate, and report on a software project in the domain of biomedicine. Creating written proposals, peer review, providing s...
BIOE214 Representations and Algorithms for Computational Molecular Biology Topics: This is a graduate level introduction to bioinformatics and computational biology, algorithms for alignment of biological sequences and structures, computing with strings, phylogenetic tree construction, hidden Markov models, basic structural...
BIOE217 Translational Bioinformatics Computational methods for the translation of biomedical data into diagnostic, prognostic, and therapeutic applications in medicine. Topics: multi-scale omics data generation and analysis, utility and limitations of public biomedical resources, machin...
BIOE219 Special Topics in Development and Cancer: Evolutionary and Quantitative Perspectives The course will serve as a literature-based introductory guide for synthesis of ideas in developmental biology and cancer, with an emphasis on evolutionary analysis and quantitative thinking. The goal for this course is for students to understand how...
BIOE220 Introduction to Imaging and Image-based Human Anatomy Focus on learning the fundamentals of each imaging modality including X-ray Imaging, Ultrasound, CT, and MRI, to learn normal human anatomy and how it appears on medical images, to learn the relative strengths of the modalities, and to answer, "What...
BIOE221 Physics and Engineering of Radionuclide-based Medical Imaging Physics, instrumentation, and algorithms for radionuclide-based medical imaging, with a focus on positron emission tomography (PET) and single photon emission computed tomography (SPECT). Topics include basic physics of photon emission from the body...
BIOE221G Gut Microbiota in Health and Disease Preference to graduate students. Focus is on the human gut microbiota. Students will receive instruction on computational approaches to analyze microbiome data and must complete a related project.
BIOE222 Physics and Engineering Principles of Multi-modality Molecular Imaging of Living Subjects Physics and Engineering Principles of Multi-modality Molecular Imaging of Living Subjects (RAD 222A). Focuses on instruments, algorithms and other technologies for non-invasive imaging of molecular processes in living subjects. Introduces research an...
BIOE223 Physics and Engineering of X-Ray Computed Tomography CT scanning geometries, production of x-rays, interactions of x-rays with matter, 2D and 3D CT reconstruction, image presentation, image quality performance parameters, system components, image artirfacts, radiation dose. Prerequisites: differential...
BIOE224 Probes and Applications for Multi-modality Molecular Imaging of Living Subjects We will focus on design, development, and application of imaging agents that target specific cellular and molecular aspects of disease. Covers the strengths and limitations of different imaging agents and how to optimize their design for image-guided...
BIOE225 Transcranial Ultrasound Neuromodulation: Physics, Neurophysiology, and Applications This course covers the basic concepts of ultrasound neuromodulation, including basic neurophysiology, ultrasound physics and applications, and comparison to other neuromodulation modalities. The physics component will include acoustic properties of b...
BIOE226 MRI Spin Physics, Relaxation Theory, and Contrast Mechanisms This course covers fundamental principles of magnetic resonance imaging (MRI) and spectroscopy (MRS) focusing on the analytic tools needed to understand interactions among nuclear spins, relaxation processes, and image contrast. Starting from a quant...
BIOE227 Functional MRI Methods Basics of functional magnetic resonance neuroimaging, including data acquisition, analysis, and experimental design. Journal club sections. Cognitive neuroscience and clinical applications. Prerequisites: basic physics, mathematics; neuroscience reco...
BIOE230 Measurements, Statistics, and Probability A combined lecture and laboratory course providing an introductory treatment of probability theory, including random variables/vectors, probability distributions, calculations of expectations and variances, limit theorems, hypothesis testing, model f...
BIOE231 Protein Engineering The design and engineering of biomolecules emphasizing proteins, antibodies, and enzymes. Combinatorial and rational methodologies, protein structure and function, and biophysical analyses of modified biomolecules. Clinically relevant examples from t...
BIOE236 Bioengineering Innate Immunity The innate immune system provides the first line of defense against infections and cancers. Dysregulated innate immunity underlies neoplastic, autoimmune and neurodegenerative diseases. Many cell types (neutrophils, macrophages, NK & T cells, epithel...
BIOE238 Principles and Tools for Metrology in Biology A practical introduction to the science of measurement. Emphasis is on the tools used to parse a biological measurement problem. Students will learn to identify and quantitatively address the critical sources of variability and bias using the core co...
BIOE240 The Biology Revolution Over the last century, engineering advances have brought us incredible marvels of transportation, manufacturing, construction, healthcare, and agriculture; essentially, the modern world as we know it. However, it has been driven in unsustainable mean...
BIOE241 Biological Macromolecules The physical and chemical basis of macromolecular function. Topics include: forces that stabilize macromolecular structure and their complexes; thermodynamics and statistical mechanics of macromolecular folding, binding, and allostery; diffusional pr...
BIOE244 Advanced Frameworks and Approaches for Engineering Integrated Genetic Systems Concepts and techniques for the design and implementation of engineered genetic systems. Topics covered include the quantitative exploration of tools that support (a) molecular component engineering, (b) abstraction and composition of functional gen...
BIOE256 Technology Assessment and Regulation of Medical Devices Regulatory approval and reimbursement for new health technologies are critical success factors for product commercialization. This course explores the regulatory and payer environment in the U.S. and abroad, as well as common methods of health techno...
BIOE260 Tissue Engineering Principles of tissue engineering and design strategies for practical applications for tissue repair. Topics include tissue morphogenesis, stem cells, biomaterials, controlled drug and gene delivery, and paper discussions. Students will learn skills f...
BIOE261 3D Bioprinting Laboratory 3D bioprinting promises engineered tissues with precise structure, composition, and cellular architecture. This biofabrication technology lies at the interface of biology, bioengineering, materials science, and instrumentation. This course will teach...
BIOE269 Comparative Single-cell Genomics in the Ocean The goal of the course is to provide students with hands-on experience in applying single-cell sequencing technology to examine marine animals with cellular resolution, both at the bench and on computers. Throughout the course, students learn how to...
BIOE271 Frugal Science As a society, we find ourselves surrounded by planetary-scale challenges ranging from lack of equitable access to health care to environmental degradation to dramatic loss of biodiversity. One common theme that runs across these challenges is the nee...
BIOE273 Biodesign for Digital Health Health care is facing significant cross-industry challenges and opportunities created by a number of factors, including the increasing need for improved access to affordable, high-quality care; growing demand from consumers for greater control of the...
BIOE279 Computational Biology: Structure and Organization of Biomolecules and Cells Computational techniques for investigating and designing the three-dimensional structure and dynamics of biomolecules and cells. These computational methods play an increasingly important role in drug discovery, medicine, bioengineering, and molecul...
BIOE281 Biomechanics of Movement Experimental techniques to study human and animal movement including motion capture systems, EMG, force plates, medical imaging, and animation. The mechanical properties of muscle and tendon, and quantitative analysis of musculoskeletal geometry. Pro...
BIOE282 Introduction to Biomechanics and Mechanobiology Introduction to the mechanical analysis of tissues (biomechanics), and how mechanical cues play a role in regulating tissue development, adaptation, regeneration, and aging (mechanobiology). Topics include tissue viscoelasticity, cardiovascular biome...
BIOE283 Mechanotransduction in Cells and Tissues Mechanical cues play a critical role in development, normal functioning of cells and tissues, and various diseases. This course will cover what is known about cellular mechanotransduction, or the processes by which living cells sense and respond to p...
BIOE285 Computational Modeling in the Cardiovascular System This course introduces computational modeling methods for cardiovascular blood flow and physiology. Topics in this course include analytical and computational methods for solutions of flow in deformable vessels, one-dimensional equations of blood fl...
BIOE291 Principles and Practice of Optogenetics for Optical Control of Biological Tissues Principles and practice of optical control of biological processes (optogenetics), emphasizing bioengineering approaches. Theoretical, historical, and current practice of the field. Requisite molecular-genetic, optoelectronic, behavioral, clinical, a...
BIOE296 Promoting Effective and Equitable Teaching in Bioengineering This weekly seminar will explore best practices through guided discussions and workshops on effective and equitable pedagogy. Emphasis is on building practical skills for defining and accomplishing course objectives. Participants will be able to impl...
BIOE299B Practical Training Educational opportunities in high technology research and development labs in industry. Students engage in internship work and integrate that work into their academic program. Following internship work, students complete a research report outlining w...
BIOE300A Molecular and Cellular Bioengineering The molecular and cellular bases of life from an engineering perspective. Analysis and engineering of biomolecular structure and dynamics, enzyme function, molecular interactions, metabolic pathways, signal transduction, and cellular mechanics. Quant...
BIOE300B Quantitative Physiology An engineering approach to understanding physiological phenomenon. Course introduces weekly topics in biology and human physiology paired with a mathematical approach to modeling and understanding that week's topic. No strict prerequisites. No prior...
BIOE301A Molecular and Cellular Engineering Lab Preference to Bioengineering graduate students. Practical applications of biotechnology and molecular bioengineering including recombinant DNA techniques, molecular cloning, microbial cell growth and manipulation, and library screening. Emphasis is o...
BIOE301B Clinical Needs and Technology The goal of this course is to introduce bioengineering students to medical technology as it is used in current clinical practice, in the modern tertiary care, subspecialty hospital. Half of the course will be devoted to labs, in which small groups o...
BIOE301C Diagnostic Devices Lab This course exposes students to the engineering principles and clinical application of medical devices through lectures and hands-on labs, performed in teams of two. Teams take measurements with these devices and fit their data to theory presented in...
BIOE301D Microfluidic Device Laboratory This course exposes students to the design, fabrication, and testing of microfluidic devices for biological applications through combination of lectures and hands-on lab sessions. In teams of two, students will produce a working prototype devices de...
BIOE301E Computational Protein Modeling Laboratory This course covers hands-on computational methods related to protein structural modeling. Through solving a series of curated problems, students build their own software tools and develop protocols to model and analyze structures. Topics: protein vis...
BIOE301P Research Data, Computation, & Visualization Computational lab course that spans research data processing workflow starting just after the point of acquisition through to computation and visualization. Topics will span Stanford specific best practices for data storage, code management, file for...
BIOE305 Dynamics and Feedback Control of Living Systems In this course, students will explore feedback control mechanisms that living organisms (cells) implement to execute their function. In addition, students will learn the basics of re-engineering feedback control systems in order for cells to execute...
BIOE313 Neuromorphics: Brains in Silicon (Formerly EE 304) Neuromorphic systems run perceptual, cognitive and motor tasks in real-time on a network of highly interconnected nonlinear units. To maximize density and minimize energy, these units--like the brain's neurons--are heterogeneous and...
BIOE320 Cryogenic electron microscopy and tomography Biophysical principles of cryogenic electron microscopy and tomography from sample preparation to data collection, image reconstruction, modeling and structure validation. Molecular and cellular examples will be used to demonstrate the types of biolo...
BIOE32Q Bon Appétit, Marie Curie! The Science Behind Haute Cuisine This seminar is for anyone who loves food, cooking or science! We will focus on the science and biology behind the techniques and the taste buds. Not a single lecture will pass by without a delicious opportunity - each weekly meeting will include not...
BIOE331 Protein Engineering The design and engineering of biomolecules emphasizing proteins, antibodies, and enzymes. Combinatorial and rational methodologies, protein structure and function, and biophysical analyses of modified biomolecules. Clinically relevant examples from t...
BIOE333 Systems Medicine The human body is a wondrous system. It is able to maintain healthy function despite huge molecular and environmental variations. But the circuits that enable it to function so robustly have specific fragilities that lead to diseases. This course wil...
BIOE335 Molecular Motors I Physical mechanisms of mechanochemical coupling in biological molecular motors, using F1 ATPase as the major model system to illustrate general principles and experimental approaches in the field. Applications of biochemistry, structure determination...
BIOE342A Mechanobiology and Biofabrication Methods Cell mechanobiology topics including cell structure, mechanical models, and chemo-mechanical signaling. Review and apply methods for controlling and analyzing the biomechanics of cells using traction force microscopy, AFM, micropatterning and cell st...
BIOE355 Advanced Biochemical Engineering Combines biological knowledge and methods with quantitative engineering principles. Quantitative review of biochemistry and metabolism; recombinant DNA technology and synthetic biology (metabolic engineering). The production of protein pharaceuticals...
BIOE361 Biomaterials in Regenerative Medicine Materials design and engineering for regenerative medicine. How materials interact with cells through their micro- and nanostructure, mechanical properties, degradation characteristics, surface chemistry, and biochemistry. Examples include novel mate...
BIOE370 Medical Scholars Research Provides an opportunity for student and faculty interaction, as well as academic credit and financial support, to medical students who undertake original research. Enrollment is limited to students with approved projects.
BIOE371 Global Biodesign: Medical Technology in an International Context This course (BIOE371, MED271) exposes students to the challenges and opportunities of developing and implementing innovative health technologies to help patients around the world. Non-communicable diseases, such as metabolic and chronic respiratory d...
BIOE374A Biodesign Innovation: Needs Finding and Concept Creation In this two-quarter course series ( BIOE 374A/B, MED 272A/B, ME 368A/B, OIT 384/5), multidisciplinary student teams identify real-world unmet healthcare needs, invent new health technologies to address them, and plan for their implementation into pat...
BIOE374B Biodesign Innovation: Concept Development and Implementation In this two-quarter course series ( BIOE 374A/B, MED 272A/B, ME 368A/B, OIT 384/5), multidisciplinary student teams identify real-world unmet healthcare needs, invent new health technologies to address them, and plan for their implementation into pat...
BIOE375 Biodesign and Entrepreneurship for Societal Health Addressing societal health and the systemic (Social, Structural, Environmental) drivers of health is a new frontier of entrepreneurship to improve global and public health at scale. In this hybrid seminar-based and experiential course, you will learn...
BIOE376 Startup Garage: Design Startup Garage is an intensive, hands-on, project-based course where students apply human-centric design, lean startup methodology, and the Business Model Canvas to conceive, design, and field-test new business concepts that address real world needs....
BIOE377 Startup Garage: Testing and Launch In this intensive, hands-on project based course, teams continue to develop their ventures based on a user need that they validated in preparation for the course. They build out more elaborate versions of their prototypes and Business Model Canvas; t...
BIOE381 Orthopaedic Bioengineering Engineering approaches applied to the musculoskeletal system in the context of surgical and medical care. Fundamental anatomy and physiology. Material and structural characteristics of hard and soft connective tissues and organ systems, and the role...
BIOE385 Biomaterials for Drug Delivery Fundamental concepts in engineering materials for drug delivery. The human body is a highly interconnected network of different tissues and there are all sorts of barriers to getting pharmaceutical drugs to the right place at the right time. Topics i...
BIOE390 Introduction to Bioengineering Research Preference to medical and bioengineering graduate students with first preference given to Bioengineering Scholarly Concentration medical students. Bioengineering is an interdisciplinary field that leverages the disciplines of biology, medicine, and e...
BIOE391 Directed Study May be used to prepare for research during a later quarter in 392. Faculty sponsor required. May be repeated for credit.
BIOE392 Directed Investigation For Bioengineering graduate students. Previous work in 391 may be required for background; faculty sponsor required. May be repeated for credit.
BIOE393 Bioengineering Departmental Research Colloquium Required Bioengineering department colloquium for first year Ph.D. and M.S. students. Topics include applications of engineering to biology, medicine, biotechnology, and medical technology, including biodesign and devices, molecular and cellular eng...
BIOE394 Innovate for Planet Health: Entrepreneurial Opportunities for Planet and Societal Health Challenges Addressing climate change and environmental/social determinants of health are the next frontiers of innovation and entrepreneurship. In this seminar you will learn about scientific and economic challenges and opportunities in innovating in these area...
BIOE395 Problem choice and decision trees in science and engineering Science and engineering researchers often spend days choosing a problem and years solving it. However, the problem initially chosen and subsequent course adjustments made along the project's decision tree, have an outsize influence on its likelihood...
BIOE396 BioEntrepreneurship Bootcamp Graduate-level seminar course intended for preparing graduate students in bioengineering/biotech entrepreneurship.
BIOE42 Physical Biology BIOE 42 is designed to introduce students to general engineering principles that have emerged from theory and experiments in biology. Topics covered will cover the scales from molecules to cells to organisms, including fundamental principles of entro...
BIOE44 Fundamentals for Engineering Biology Lab An introduction to next-generation techniques in genetic, molecular, biochemical, cellular and tissue engineering. Lectures cover advances in the field of synthetic biology with emphasis on genetic engineering, 3D bioprinting, plasmid design, gene sy...
BIOE450 Advances in Biotechnology Overview of cutting edge advances in biotechnology with a focus on therapeutic and health-related topics. Academic and industrial speakers from a range of areas including protein engineering, immuno-oncology, DNA sequencing, the microbiome, phamacoge...
BIOE454 Synthetic Biology and Metabolic Engineering Principles for the design and optimization of new biological systems. Development of new enzymes, metabolic pathways, other metabolic systems, and communication systems among organisms. Example applications include the production of central metabolit...
BIOE485 Modeling and Simulation of Human Movement Direct experience with the computational tools used to create simulations of human movement. Lecture/labs on animation of movement; kinematic models of joints; forward dynamic simulation; computational models of muscles, tendons, and ligaments; creat...
BIOE500 Thesis (Ph.D.) (Staff)
BIOE51 Anatomy for Bioengineers Fundamental human anatomy, spanning major body systems and tissues including nerve, muscle, bone, cardiovascular, respiratory, gastrointestinal, and renal systems. Explore intricacies of structure and function, and how various body parts come togethe...
BIOE60 Beyond Bitcoin: Applications of Distributed Trust In the past, people have relied on trusted third parties to facilitate the transactions that define our lives: how we store medical records, how we share genomic information with scientists and drug companies, where we get our news, and how we commun...
BIOE70Q Medical Device Innovation BIOE 70Q invites students to apply design thinking to the creation of healthcare technologies. Students will learn about the variety of factors that shape healthcare innovation, and through hands-on design projects, invent their own solutions to clin...
BIOE72N Pathophysiology and Design for Cardiovascular Disease Future physicians, social and biological scientists, and engineers will be the core of teams that solve major problems threatening human health. Bridging these diverse areas will require thinkers who can understand human biology and also think broadl...
BIOE80 Introduction to Bioengineering (Engineering Living Matter) Students completing BIOE.80 should have a working understanding for how to approach the systematic engineering of living systems to benefit all people and the planet. Our main goals are (1) to help students learn ways of thinking about engineering l...
BIOE802 TGR Dissertation (Staff)