Time Schedule:
James Bassingthwaighte
BIOEN 498
Seattle Campus
Topics of current interest in the field, offered as lectures, conferences, or laboratory. Offered: AWSpS.
Class description
Quantitative and integrative treatments of transport and metabolism of solutes and their reactions in physiological systems, as appropriate for the modeling of metabolism and drug therapy. Part I: Basic transport mechanisms: molecules in fluids, convection, diffusion, filtration, permeation, binding processes, solubility and partition, reactions, transmembrane transporters, enyzymes, channels, pumps and electrophysiology, integration at the cellular level. Part II: Mass transport in the circulatory system, convection-diffusion, heterogeneity of perfusion in organs, pressure-flow dynamics, networks, blood-tissue exchange processes tracer techniques, gas transport in blood, airway and alveolar exchange, in vivo imaging and metabolism, renal solute and water exchanges.
Student learning goals
Learning how to translate qualitative physiological descriptions into models of the system
Use quantitative approaches to understanding biological systems
Reconciling contradictions amongst data sets.
Composing and running model solutions to analyze and parameterize data
Testing concept and mathematical models against data
using optimization techniques and Monte carlo methods to define parameter confidence limits
General method of instruction
Use a textbook, partially written, as the basis for lecture-discussions
Recommended preparation
BIOEN 503, biochemistry, Ordinary and partial differential equations
Class assignments and grading
1. Solving problems of the given in the text book. 2. Research Project: Develop a computational model of a physiological system on which there are data available, but for which there is not a model available on SBML, CellML or Physiome sites. The modeling should be taken to a level consistent with the teaching or research models up on the website www.physiome.org, and of sufficient complexity and originality to merit recognition as useful.
Homework: Weekly question sets. 30% of grade Mid-term exam: 20% of grade Research Project: 20% of grade Final Exam: 30% of grade
