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Course Criteria
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3.00 Credits
Covers, at a molecular scale, the analysis and design of materials used in contact with biological systems, and biomimetic strategies aimed at creating new materials based on principles found in biology. Topics include molecular interaction between bio- and synthetic molecules and surfaces; design, synthesis, and processing approaches for materials that control cell functions; and application of materials science to problems in tissue engineering, drug delivery, vaccines, and cell-guiding surfaces. Students taking graduate version complete additional assignments.
Prerequisite:
Prereq: 3.034, 20.110, or permission of instructor
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5.00 Credits
Meets with undergraduate subject 6.021J. Requires the completion of more advanced home problems and/or an additional project.
Prerequisite:
Prereq: Physics II (GIR); 18.03; 2.005, 6.002, 6.003, 6.071, 10.301, 20.110, or permission of instructor
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4.00 Credits
Meets with undergraduate subject 6.022J. Requires the completion of more advanced home problems and/or an additional project.
Prerequisite:
Prereq: 2.006 or 6.013; 6.021
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3.00 Credits
Offers an introduction to imaging methods at the forefront of modern neurobiology. Emphasis is placed on in vivo imaging in the context of neural systems research. Specific topics covered include classical optics, fluorescence and fluorescent dyes, multiphoton microscopy, reflectance-based imaging methods, functional and anatomical magnetic resonance imaging, and molecular neuroimaging. Both applications and underlying principles are discussed, and lectures are supplemented by demonstrations of imaging techniques in the laboratory. Limited to 15.
Prerequisite:
Prereq: Permission of instructor
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3.00 Credits
Illustrates computational approaches to solving problems in systems biology. Uses a series of case studies to demonstrate how an effective match between the statement of a biological problem and the selection of an appropriate algorithm or computational technique can lead to fundamental advances. Covers several discrete and numerical algorithms used in simulation, feature extraction, and optimization for molecular, network, and systems models in biology. Students taking graduate version complete additional assignments.
Prerequisite:
Prereq: 6.021, 6.034, 6.046, 6.336, 7.91, 18.417, or permission of instructor
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3.00 Credits
Background in the theory and application of noninvasive imaging methods in biology and medicine, with emphasis on neuroimaging. Focuses on the modalities most frequently used in scientific research (x-ray CT, PET/SPECT, MRI, and optical imaging), and includes discussion of molecular imaging approaches used in conjunction with these scanning methods. Lectures are supplemented by in-class discussions of problems in research and demonstrations of imaging systems.
Prerequisite:
Prereq: 18.03, 8.03, or permission of instructor
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2.00 Credits
The stages in drug discovery and development begin with target identification and end with the submission of preclinical and clinical data to the regulatory authorities. Following identification of a lead compound, there is optimization of structures for pharmaceutical properties, bioavailability, and safety. Subject relies on actual cases presented by the scientist(s) involved in discovery and drug development. A major goal is to analyze the cases and determine how the discovery and development process might be influenced by new and future technologies.
Prerequisite:
Prereq: Permission of instructor
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3.00 Credits
Introduces the theory and the design of optical microscopy and its applications in biology and medicine. The course starts from an overview of basic optical principles allowing an understanding of microscopic image formation and common contrast modalities such as dark field, phase, and DIC. Advanced microscopy imaging techniques such as total internal reflection, confocal, and multiphoton will also be discussed. Quantitative analysis of biochemical microenvironment using spectroscopic techniques based on fluorescence, second harmonic, Raman signals will be covered. We will also provide an overview of key image processing techniques for microscopic data.
Prerequisite:
Prereq: Permission of instructor
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3.00 Credits
Provides an introduction to computational and systems biology. Includes units on the analysis of protein and nucleic acid sequences, protein structures, and biological networks. Presents principles and methods used for sequence alignment, motif finding, expression array analysis, structural modeling, structure design and prediction, and network analysis and modeling. Techniques include dynamic programming, Markov and hidden Markov models, Bayesian networks, clustering methods, and energy minimization approaches. Exposes students to emerging research areas. Designed for 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 less quantitative backgrounds. Students taking graduate version complete additional assignments.
Prerequisite:
Prereq: Biology (GIR); 7.05 or 5.07; 1.00, 1.001, or 6.00; or permission of instructor
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5.00 Credits
Chemical and physical properties of the cell and its building blocks. Structures of proteins and principles of catalysis. The chemistry of organic/inorganic cofactors required for chemical transformations within the cell. Basic principles of metabolism and regulation in pathways, including glycolysis, gluconeogenesis, fatty acid synthesis/degradation, pentose phosphate pathway, Krebs cycle and oxidative phosphorylation, DNA replication, and transcription and translation.
Prerequisite:
Prereq: 5.12
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