This class analyzes complex biological processes from the molecular, cellular, extracellular, and organ levels of hierarchy. Emphasis is placed on the basic biochemical and biophysical principles that govern these processes. Examples of processes to be studied include chemotaxis, the fixation of nitrogen into organic biological molecules, growth factor and hormone mediated signaling cascades, and signaling cascades leading to cell death in response to DNA damage. In each case, the availability of a resource, or the presence of a stimulus, results in some biochemical pathways being turned on while others are turned off. The course examines the dynamic aspects of these processes and details how biochemical mechanistic themes impinge on molecular/cellular/tissue/organ-level functions. Chemical and quantitative views of the interplay of multiple pathways as biological networks are emphasized. Student work will culminate in the preparation of a unique grant application in an area of biological networks.

This course illustrates how knowledge and principles of biology, biochemistry, and engineering are integrated to create new products for societal benefit. It uses a case study format to examine recently developed products of pharmaceutical and biotechnology industries: how a product evolves from initial idea, through patents, testing, evaluation, production, and marketing. Emphasizes scientific and engineering principles; the responsibility scientists, engineers, and business executives have for the consequences of their technology; and instruction and practice in written and oral communication. The topic focus of this class will vary from year to year. This version looks at inflammation underlying many diseases, specifically its role in cancer, diabetes, and cardiovascular disease.

The objective of this subject is to teach the design of contemporary information systems for biological and medical data. These data are growing at a prodigious rate, and new information systems are required. This subject will cover examples from biology and medicine to illustrate complete life cycle information systems, beginning with data acquisition, following to data storage and finally to retrieval and analysis. Design of appropriate databases, client-server strategies, data interchange protocols, and computational modeling architectures will be covered. Students are expected to have some familiarity with scientific application software and a basic understanding of at least one contemporary programming language (C, C++, Java, Lisp, Perl, Python, etc.). A major term project is required of all students. Reading is assigned from the contemporary literature, and there is occasional homework.

This subject deals primarily with kinetic and equilibrium mathematical models of biomolecular interactions, as well as the application of these quantitative analyses to biological problems across a wide range of levels of organization, from individual molecular interactions to populations of cells.

Mechanical forces play a decisive role during development of tissues and organs, during remodeling following injury as well as in normal function. A stress field influences cell function primarily through deformation of the extracellular matrix to which cells are attached. Deformed cells express different biosynthetic activity relative to undeformed cells. The unit cell process paradigm combined with topics in connective tissue mechanics form the basis for discussions of several topics from cell biology, physiology, and medicine.

This course addresses the challenges of defining a relationship between exposure to environmental chemicals and human disease. Course topics include epidemiological approaches to understanding disease causation; biostatistical methods; evaluation of human exposure to chemicals, and their internal distribution, metabolism, reactions with cellular components, and biological effects; and qualitative and quantitative health risk assessment methods used in the U.S. as bases for regulatory decision-making. Throughout the term, students consider case studies of local and national interest.

Introduction to computational biology including the fundamentals of protein and nucleic acid sequence analysis, phylogenetic analysis, motif finding, hidden Markov models, and 3D structure prediction and modeling. An overview of emerging fields including expression profiling, quantitative image analysis and the modeling of cellular signal transduction networks are also included. Subject designed for advanced undergraduates and graduate students with strong backgrounds in either molecular biology or computer science but not necessarily both. Two self-study tracks are offered, introducing either basic statistical methods and programming (to biologists) or the fundamentals of molecular biology (to computer scientists). Lectures combine both perspectives to illustrate how computation is having a significant impact on modern biology. Serving as an introduction to computational biology, this course emphasizes the fundamentals of nucleic acid and protein sequence analysis, structural analysis, and the analysis of complex biological systems. The principles and methods used for sequence alignment, motif finding, structural modeling, structure prediction, and network modeling are covered. Students are also exposed to currently emerging research areas in the fields of computational and systems biology.

This course will focus on understanding aspects of modern technology displaying exponential growth curves and the impact on global quality of life through a weekly updated class project integrating knowledge and providing practical tools for political and business decision-making concerning new aspects of bioengineering, personalized medicine, genetically modified organisms, and stem cells. Interplays of economic, ethical, ecological, and biophysical modeling will be explored through multi-disciplinary teams of students, and individual brief reports.

Designed as a freshmen seminar course, faculty from various School of Engineering departments describe the research and educational opportunities specific to and offered by their departments. Background lectures by the 20.010J staff introduce students to the fundamental scientific basis for bioengineering. Specially produced videos provide additional background information that is supplemented with readings from newspaper and magazine articles. Bioengineering at MIT is represented by the diverse curricula offered by most Departments in the School of Engineering. This course samples the wide variety of bioengineering options for students who plan to major in one of the undergraduate Engineering degree programs. The beginning lectures describe the science basis for bioengineering with particular emphasis on molecular cell biology and systems biology. Bioengineering faculty will then describe the bioengineering options in a particular engineering course as well as the type of research conducted by faculty in the department.

Designed as a freshmen seminar course, faculty from various School of Engineering departments describe the research and educational opportunities specific to and offered by their departments. Background lectures by the BE.010J staff introduce students to the fundamental scientific basis for bioengineering. Specially produced videos provide additional background information that is supplemented with readings from newspaper and magazine articles.

This course introduces experimental biochemical and molecular techniques from a quantitative engineering perspective. Experimental design, rigorous data analysis, and scientific communication form the underpinnings of this subject. Three discovery-based experimental modules focus on genome engineering, expression engineering, and biomaterial engineering.

This course introduces experimental biochemical and molecular techniques from a quantitative engineering perspective. Experimental design, data analysis, and scientific communication form the underpinnings of this subject. Three discovery-based experimental modules focus on RNA engineering, protein engineering, and cell-biomaterial engineering.This OCW site is based on the source OpenWetWare class Wiki, 20.109(S10): Laboratory Fundamentals of Biological Engineering.

This course presents a unique and challenging perspective on the causes of human disease and mortality. The course focuses on analyses of major causes of mortality in the US since 1900: cancer cardiovascular and cerebrovascular diseases, diabetes, infectious diseases. Students create analytical models to derive estimates for historically variant population risk factors and physiological rate parameters, and conduct analyses of familial data to separately estimate inherited and environmental risks. The course evaluates the basic population genetics of dominant, recessive and non-deleterious inherited risk factors.

This course develops and applies scaling laws and the methods of continuum mechanics to biomechanical phenomena over a range of length scales. Topics include: structure of tissues and the molecular basis for macroscopic properties; chemical and electrical effects on mechanical behavior; cell mechanics, motility and adhesion; biomembranes; biomolecular mechanics and molecular motors. Experimental methods for probing structures at the tissue, cellular, and molecular levels.

Analysis and design at a molecular scale of materials used in contact with biological systems, including biotechnology and biomedical engineering. Topics include molecular interactions between bio- and synthetic molecules and surfaces; design, synthesis, and processing approaches for materials that control cell functions; and application of state-of-the-art materials science to problems in tissue engineering, drug delivery, biosensors, and cell-guiding surfaces.

Basic molecular structural principles of biological materials. Molecular structures of various materials of biological origin, including collagen, silk, bone, protein adhesives, GFP, self-assembling peptides. Molecular design of new biological materials for nanotechnology, biocomputing and regenerative medicine. Graduate students are expected to complete additional coursework. This course, intended for both graduate and upper level undergraduate students, will focus on understanding of the basic molecular structural principles of biological materials. It will address the molecular structures of various materials of biological origin, such as several types of collagen, silk, spider silk, wool, hair, bones, shells, protein adhesives, GFP, and self-assembling peptides. It will also address molecular design of new biological materials applying the molecular structural principles. The long-term goal of this course is to teach molecular design of new biological materials for a broad range of applications. A brief history of biological materials and its future perspective as well as its impact to the society will also be discussed. Several experts will be invited to give guest lectures.

This courses focuses on the fundamentals of tissue and organ response to injury from a molecular and cellular perspective. There is a special emphasis on disease states that bridge infection, inflammation, immunity, and cancer. The systems approach to pathophysiology includes lectures, critical evaluation of recent scientific papers, and student projects and presentations. This term, we focus on hepatocellular carcinoma (HCC), chronic-active hepatitis, and hepatitis virus infections. In addition to lectures, students work in teams to critically evaluate and present primary scientific papers.

This course focuses on the latest scientific developments and discoveries in the field of nanomechanics, the study of forces and motion on extremely tiny (10-9 m) areas of synthetic and biological materials and structures. At this level, mechanical properties are intimately related to chemistry, physics, and quantum mechanics. Most lectures will consist of a theoretical component that will then be compared to recent experimental data (case studies) in the literature. The course begins with a series of introductory lectures that describes the normal and lateral forces acting at the atomic scale. The following discussions include experimental techniques in high resolution force spectroscopy, atomistic aspects of adhesion, nanoindentation, molecular details of fracture, chemical force microscopy, elasticity of single macromolecular chains, intermolecular interactions in polymers, dynamic force spectroscopy, biomolecular bond strength measurements, and molecular motors.

Principles of mass transport and electrical signal generation for biological membranes, cells, and tissues. Mass transport through membranes: diffusion, osmosis, chemically mediated, and active transport. Electric properties of cells: ion transport; equilibrium, resting, and action potentials. Kinetic and molecular properties of single voltage-gated ion channels. Laboratory and computer exercises illustrate the concepts. For juniors and seniors. Students engage in extensive written and oral communication exercises.