Introduction to Mathematical Biology.ppt

Introduction to Mathematical Biology Mathematical Biology Lecture 1 James A. Glazier P548/M548 Mathematical Biology Instructor: James A. Glazier Classes: Tu. Thu. 8:00AM–9:30AM Office Hours: By appointment Texts: 1) Murray – Mathematical Biology volumes 1 2 2) Fall, Marland, Wagner and Tyson – Computational Cell Biology 3) Keener and Sneyd – Mathematical Physiology Requirements: Weekly Homework (40% of Grade) Written Project Report (40% of Grade) Oral Presentation (20% of Grade) No Final Exam – Late Assignments Will Be Marked Down. Software: CompuCell 3D Course Topics Population Dynamics and Mathematical Background Stochastic Gating Reaction Kinetics, Oscillating Reactions, and Reactor Networks Molecular Motors Collective Phenomena – Flocks and Neural Networks Higher Dimensional Models: Mathematics Excitable Media – Heart and Calcium Waves Turing Patterns What is Mathematical Biology? Can be abstruse and self focused when it concentrates on what is soluble analytically rather than what is important. However, simplified models can teach about general classes of behavior and types of parameter dependence. Goals Teach a set of generally useful methodologies. Give a set of key examples Build a computational models (hopefully leading you to publish something) Main Methods Linear Stability Analysis Bifurcation Analysis Phase Plane Diagrams Stochastic Methods Fast/Slow Time-Scale Separation Scaling Theory and Fractals What is Computational Biology? Modeling, Not just Curve Fitting Must have a mechanistic basis Can address multiscale structures and feedback between elements. Not Bioinformatics/Genomics (primarily statistics) Not Cluster Analysis, Image Processing, Pattern Recognition Goals To explain biological processes that result in an observed phenomena. To predict previously unobserved phenomena. To identify key generic reactions. To guide experiments: Suggest new experiments. Eliminate unneeded experiments. Help interpret experiments. Why Needed? A huge gap be