Biomolecular Systems
EE 546 Advanced Topics in Control System Theory
MW 9:00 - 10:20
EEB 042
This
course is an introduction to the principles and tools for modeling,
analyzing, and synthesizing the dynamic behavior of synthetic
biomolecular systems. We begin with modeling tools such as reaction-rate
equations, stochastic models, and specific models of core processes
such as transcription, translation, protein-protein interactions, and
metabolic networks. We will also consider alternative modeling
techniques such as process algebras, Petri nets, and Boolean
networks. We will then describe in detail the control and dynamical
systems tools used to analyze these models, including stability of
equilibria, limit cycles, robustness, parameter uncertainty, and model
reduction through time-scale separation. These tools will be applied
to design examples from both natural systems and synthetic biomolecular
circuits. We address the problem of modular composition of synthetic
circuits, the tools for analyzing the extent of modularity, and design
techniques for ensuring modular behavior. We consider design trade-offs,
focusing on perturbations due to noise and competition for shared
cellular resources. We will use a variety of software including packages
for MATLAB and/or Mathematica.
Prerequisites: The
course is intended for advanced undergraduates and graduate students. A
background in differential equations is a must. Some background in
synthetic biology preferred.
For EE graduate students: EE546 counts as a depth course for SCR students, and as a breath course for other students.
For
non-EE students: Check with your graduate advisor. You may be able to
have this course count toward your graduate coursework.
