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Course Criteria
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4.00 Credits
Tutorial, to be arranged. Limited to juniors/ seniors. Individual research in some aspect of biomathematics designed to acquaint students in depth with mathematical models and computer applications in biology. Must be taken for at least two terms and for total of at least 8 units. Thesis required. P/NP or letter grading.
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4.00 Credits
Tutorial, four hours. Limited to juniors/seniors. Individual intensive study, with scheduled meetings to be arranged between faculty member and student. Assigned reading and tangible evidence of mastery of subject matter required. May be repeated for credit. Individual contract required. P/NP or letter grading.
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2.00 Credits
Tutorial, two hours. Limited to juniors/ seniors. Supervised individual research or investigation under guidance of faculty mentor. Culminating paper required. May be repeated for credit. Individual contract required. P/NP or letter grading.
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4.00 Credits
Lecture, three hours. Preparation: calculus. Introduction to theory of neural networks and their applications. Survey of current neural-network models of cognitive functions. Concurrently scheduled with course CM208C. P/NP or letter grading.
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4.00 Credits
Lecture, three hours; laboratory, two hours. Preparation: human molecular biology, biochemistry, and cell biology. Not open for credit to Physiological Science majors. Broad overview of basic biological activities and organization of human body in system (organ/tissue) to system basis, with particular emphasis on molecular basis. Modeling/simulation of functional aspect of biological system included. Actual demonstration of biomedical instruments, as well as visits to biomedical facilities. Concurrently scheduled with course CM202. Letter grading.
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4.00 Credits
Lecture, three hours; laboratory, two hours. Preparation: human molecular biology, biochemistry, and cell biology. Not open for credit to Physiological Science majors. Molecular-level understanding of human anatomy and physiology in selected organ systems (digestive, skin, musculoskeletal, endocrine, immune, urinary, reproductive). System-specific modeling/ simulations (immune regulation, wound healing, muscle mechanics and energetics, acid-base balance, excretion). Functional basis of biomedical instrumentation (dialysis, artificial skin, pathogen detectors, ultrasound, birth-control drug delivery). Concurrently scheduled with course CM203. Letter grading.
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4.00 Credits
Lecture, three hours; discussion, two hours; outside study, seven hours. Requisites: Chemistry 20A, 20B, 30A, Life Sciences 2, 3. To understand biological materials and design synthetic replacements, it is imperative to understand their physical chemistry. Biomacromolecules such as protein or DNA can be analyzed and characterized by applying fundamentals of polymer physical chemistry. Investigation of polymer structure and conformation, bulk and solution thermodynamics and phase behavior, polymer networks, and viscoelasticity. Application of engineering principles to problems involving biomacromolecules such as protein conformation, solvation of charged species, and separation and characterization of biomacromolecules. Concurrently scheduled with course C204. Letter grading.
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4.00 Credits
Lecture, four hours; discussion, one hour; outside study, seven hours. Enforced requisites: Chemistry 20A, 20B, 20L. Highly recommended: one organic chemistry course. Bioconjugate chemistry is science of coupling biomolecules for wide range of applications. Oligonucleotides may be coupled to one surface in gene chip, or one protein may be coupled to one polymer to enhance its stability in serum. Wide variety of bioconjugates are used in delivery of pharmaceuticals, in sensors, in medial diagnostics, and in tissue engineering. Basic concepts of chemical ligation, including choice and design of conjugate linkers depending on type of biomolecule and desired application, such as degradable versus nondegradable linkers. Presentation and discussion of design and synthesis of synthetic bioconjugates for some sample applications. Concurrently scheduled with course C205. Letter grading.
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4.00 Credits
Lecture, three hours; discussion, one hour; outside study, eight hours. Requisites: Chemistry 14C, Life Sciences 1, 2, 3, 4, Mathematics 33B, Physics 1C, 4AL, 4BL. Coverage in depth of physical processes associated with biological membranes and channel proteins, with specific emphasis on electrophysiology. Basic physical principles governing electrostatics in dielectric media, building on complexity to ultimately address action potentials and signal propagation in nerves. Topics include Nernst/Planck and Poisson/ Boltzmann equations, Nernst potential, Donnan equilibrium, GHK equations, energy barriers in ion channels, cable equation, action potentials, Hodgkin/Huxley equations, impulse propagation, axon geometry and conduction, dendritic integration. Concurrently scheduled with course C206. Letter grading.
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4.00 Credits
Lecture, four hours; discussion, one hour; outside study, seven hours. Requisites: Bioengineering 100, 120, Life Sciences 2, 3, Physics 1A, 1B, 1C. Analysis of sensors based on measurements of fluctuating ionic conductance through artificial or protein nanopores. Physics of pore conductance. Applications to single molecule detection and DNA sequencing. Review of current literature and technological applications. History and instrumentation of resistive pulse sensing, theory and instrumentation of electrical measurements in electrolytes, nanopore fabrication, ionic conductance through pores and GHK equation, patch clamp and single channel measurements and instrumentation, noise issues, protein engineering, molecular sensing, DNA sequencing, membrane engineering, and future directions of field. Concurrently scheduled with course C231. Letter grading.
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