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20 380: Biological Engineering Design
5.00 Credits
Massachusetts Institute of Technology
Illustrates how knowledge and principles of biology, biochemistry, and engineering are integrated to create new products for societal benefit. Uses 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, as well as the responsibility scientists, engineers, and business executives have for the consequences of their technology. Instruction and practice in written and oral communication provided. Enrollment limited; preference to Course 20 undergraduates.
Prerequisite:
Prereq: 7.06, 20.309
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20 380 - Biological Engineering Design
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20 385: Understanding Current Research in Synthetic Biology
3.00 Credits
Massachusetts Institute of Technology
Provides an in-depth understanding of the state of research in synthetic biology. Critical evaluation of primary research literature covering a range of approaches to the design, modeling and programming of cellular behaviors. Focuses on developing the skills needed to read, present and discuss primary research literature, and to manage and lead small teams. Students mentor a small undergraduate team of 20.020 students. Open to advanced students with appropriate background in biology.
Prerequisite:
Prereq: 20.109, 20.320; or permission of instructor
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20 385 - Understanding Current Research in Synthetic Biology
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20 390: Foundations of Computational and Systems Biology
3.00 Credits
Massachusetts Institute of Technology
Introduction to computational biology emphasizing the fundamentals of nucleic acid and protein sequence and structural analysis, as well as the analysis of complex biological systems. Principles and methods used for sequence alignment, motif finding, expression array analysis, structural modeling, structure prediction and network modeling. Techniques include dynamic programming, Markov models, clustering techniques, and energy minimization approaches. Exposure to currently emerging research areas. Designed for advanced undergraduates and graduate students with strong backgrounds in either molecular biology or computer science. Some foundational material covering basic programming skills, probability and statistics is provided for students with non-quantitative backgrounds.
Prerequisite:
Prereq: 7.05 or 5.07; or Biology (GIR) and 6.001; or permission of instructor
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20 390 - Foundations of Computational and Systems Biology
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20 405: Principles of Synthetic Biology
3.00 Credits
Massachusetts Institute of Technology
Introduces the basics of synthetic biology, including quantitative cellular network characterization and modeling. Considers the discovery and genetic factoring of useful cellular activities into reusable functions for design. Emphasizes the principles of biomolecular system design and diagnosis of designed systems. Illustrates cutting-edge applications in synthetic biology and enhances skills in analysis and design of synthetic biological applications. Students taking graduate version complete additional assignments.
Prerequisite:
Prereq: None
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20 405 - Principles of Synthetic Biology
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20 409: Biological Engineering II: Instrumentation and Measurement
2.00 Credits
Massachusetts Institute of Technology
Sensing and measurement aimed at quantitative molecular/cell/tissue analysis in terms of genetic, biochemical, and biophysical properties. Methods include light and fluorescence microscopies, and electro-mechanical probes (atomic force microscopy, laser and magnetic traps, MEMS devices). Application of statistics, probability and noise analysis to experimental data. Limited to 5 graduate students.
Prerequisite:
Prereq: 18.03
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20 409 - Biological Engineering II: Instrumentation and Measurement
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20 410J: Molecular, Cellular, and Tissue Biomechanics
3.00 Credits
Massachusetts Institute of Technology
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.
Prerequisite:
Prereq: Biology (GIR); 2.002, 2.006, 6.013, 10.301, or 10.302
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20 410J - Molecular, Cellular, and Tissue Biomechanics
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20 411J: Cell-Matrix Mechanics
3.00 Credits
Massachusetts Institute of Technology
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.
Prerequisite:
Prereq: 2.001, Chemistry (GIR), Biology (GIR); or permission of instructor
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20 411J - Cell-Matrix Mechanics
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20 415: Physical Biology
3.00 Credits
Massachusetts Institute of Technology
Develops and applies principles of probability, statistics and physics to biological systems at the molecular, cellular and tissue levels. Applies information theory, statistical mechanics and transition-state theory to equilibrium and non-equilibrium biological systems. Focuses on sequence conservation and evolution, protein-protein/-DNA interactions, and cytoskeletal dynamics mediating cell division, migration, and morphogenesis. Presents quantitative experimental techniques to measure protein dynamics in living cells; techniques include fluorescence correlation and cross-correlation spectroscopy, particle-tracking, and image-based correlation.
Prerequisite:
Prereq: Permission of instructor
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20 415 - Physical Biology
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20 416J: Evaluating Current Research in Molecular and Cellular Biophysics
2.00 Credits
Massachusetts Institute of Technology
Focuses on the current state of research in molecular and cellular biophysics. Bi-weekly meetings include lectures by distinct biophysics faculty on specific topics in molecular and cellular biophysics followed by in-depth discussion of relevant literature. Provides broad exposure to diverse areas of biophysics research, with an emphasis on reading and evaluating scientific literature critically.
Prerequisite:
Prereq: None
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20 416J - Evaluating Current Research in Molecular and Cellular Biophysics
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20 420J: Biomolecular Kinetics and Cellular Dynamics
3.00 Credits
Massachusetts Institute of Technology
Fundamental analysis of biological rate processes using approaches from biomolecular reaction kinetics and dynamical systems engineering. Topics include binding and hybridization interactions, enzyme reactions, metabolic cycles, gene regulation, receptor/ligand trafficking systems, intra- and intercellular signaling, and cell population dynamics.
Prerequisite:
Prereq: 7.05, 7.06, 18.03
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20 420J - Biomolecular Kinetics and Cellular Dynamics
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