Physiology 472/572 Quantitative modeling of biological systems (3 units) Fall 2009 Coordinator: Timothy W. Secomb, Ph.D. Professor, Physiology and Mathematics Department of Physiology Office: 1527 E. Mabel St. Phone: 626-4513, Email: [email protected] Instructors: Timothy W. Secomb Christopher Bergevin, Ph.D., Visiting Assistant Professor, Mathematics Office: Mathematics 214 Phone: 621-2170, Email: [email protected] Time, location: 9:30-10:45am Tuesday and Thursday, Modern Languages 210 Website: http://www.physiology.arizona.edu/people/secomb/472572info09 Grading: Regular grades are awarded for this course: A B C D F The grades will be assigned on the following basis: PSIO472: Midterm 30%, Final exam 40%, Homework 15%, Presentation 15% PSIO572: Midterm 25%, Final exam 35%, Homework 10%, Project report and presentation, 30%. The final grade for the course will be based on the total score out of 100. Grades will not be lower than the following: 90% to 100%: A; 80% to 90%: B; 70% to 80%: C; 60% to 70%: D; 0% to 60%: F Prerequisite(s): MATH 129 or equivalent. A course in ordinary differential equations is recommended but not required. Description: Techniques for development of mathematical models for biological phenomena. Examples of molecular, cellular, tissue-level and population-level processes are considered. Underlying mathematical and biological concepts are introduced as needed. Textbook: No textbook is required. Selected readings from research literature will be provided via the course web site. The following references are recommended: Mathematical Physiology, by James Keener and James Sneyd. Springer, 1998. Modeling and Simulation in Medicine and the Life Sciences, second edition, by Frank C. Hoppensteadt and Charles S. Peskin. Springer, 2002. Homework: Weekly assignments will review basic mathematical techniques and biological knowledge and will provide examples of model development for biological phenomena. Examinations: A midterm and a final examination will be given. No makeup exams will be allowed. Examinations will test biological knowledge,mathematical skills, and ability to formulate models for biological systems related to those discussed in the course. Projects and presentations: All students will be required to prepare a presentation on a chosen in consultation with the instructors. Presentations will take place on December 4 and 9. Undergraduate students: develop a mathematical model or review a published model, and make a short oral presentation. The performance on this project will form 15% of the final grade. Graduate students: develop a mathematical model, write a written report, and make a short oral presentation. The performance on this project will form 30% of the final grade. Course structure: Weeks 1 - 5: Molecular and cellular phenomena. Diffusion, membrane transport, nerve impulse conduction. Weeks 6 - 10: Tissue-level phenomena. Compartmental models, oxygen transport, blood flow, the inner ear. Weeks 11-13: Population-level phenomena. Population dynamics, infectious diseases. Weeks 14-15: Student
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