UCSB Engineering

Frank Doyle


Chemical Engineering
Electrical & Computer Engineering

Frank Doyle


Department of Chemical Engineering
UC Santa Barbara
Santa Barbara, CA 93106

tel: (805) 893-8133
fax: (805) 893-4731

Personal web site

Mammalian Circadian Gene Regulatory Architecture

Mammalian Circadian Gene Regulatory Architecture

Research Description

Our research is focused on two areas: (i) nonlinear model-based control of complex nonlinear and distributed processes, and (ii) the application of systems engineering tools to problems in biology. The former topic is addressed with advanced simulation, optimization, and model reduction methodologies, and the problems of interest span the chemical, pulp & paper, and pharmaceutical sectors. Of particular interest are the control of distributions in particule systems. In the area of systems biology, we bring traditional systems engineering tools (e.g., model identification, parametric sensitivity, and closed-loop analysis) to analyze complex, hierarchical biological systems. The guiding principle is that systems-level behavior can only be understood by considering systematic interactions across multiple time and spatial dimensions.

Research Groups


Before arriving to UCSB, Doyle was on the faculty at the University of Deleware and University of Purdue. At UCSB, his current research is focused on two areas: (i) nonlinear model-based control of complex nonlinear and distributed processes, and (ii) the application of systems engineering tools to problems in biology.


  • Boehringer Mannheim/Roche Diagnostics Corporation
  • CAE-Link Corporation
  • Weyerhaeuser Company
  • White & Case, LLP
  • E.I. DuPont deNemours & Co.
  • Integrated Engineering Technologies (IETek)
  • Abbott Laboratories
  • Quantum Chemical
  • Occupational Safety and Health Administration (OSHA)
  • Savannah River Site (DOE)


  • AIChE Computing in Chemical Engineering Award, 2005
  • Alexander von Humboldt Research Fellow (2001-2002), 2002
  • ASEE Ray Fahien Award, 2000
  • Office of Naval Research Young Investigator Award (1996-1999), 1999
  • Fellow, Institute for Transforming Undergraduate Education (ITUE), 1998
  • Trustee, CACHE (Computer Aids for Chemical Eng.), 1998
  • National Science Foundation National Young Investigator Award (1992-1997), 1997
  • R.N. Shreve Prize, Chemical Engineering Teaching Award (1995, 1997), 1997
  • ASEE Section Outstanding Teacher Award (Illinois/Indiana), 1996
  • Purdue University Teachers for Tomorrow Award, 1996
  • Tau Beta Pi Dean Marion B. Scott Exemplary Character Award, 1996
  • A.A. Potter Award, Engineering Teaching Award, 1995

Selected Publications

See complete list of publications
  • A novel computational model of the circadian clock in Arabidopsis that incorporates PRR7 and PRR9, Nature Molecular Systems Biology, 2, 2006, 1-13, M.N. Zeilinger, E.M. Farre, S.R. Taylor, S.A. Kay, and F.J. Doyle III
  • Control Challenges in the Pulp and Paper Industry, Control Systems Magazine, August, 2006, 30-39, M. Mercangoz and F.J. Doyle III
  • Isochron-based Phase Response Analysis of Circadian Rhythms, Biophys. J., 91, 2006, 2131-2141, R. Gunawan and F.J. Doyle III
  • Optimal Genetic Manipulations in Batch Bioreactor Control, Automatica, 42, 2006, 1723-1733, K. Gadkar, R. Mahadevan, and F.J. Doyle III
  • Systems Interface Biology, J. Royal Soc. Interface, 3, 2006, 603-616, J. Stelling and F. J. Doyle III
  • Run-to-Run Control of Meal-Related Insulin Dosing, Diabetes Tech. & Ther., 7, 2005, 48-57, H. Zisser, L. Jovanovic, F. Doyle III, P. Ospina, and C. Owens
  • Robustness Properties of Circadian Clock Architectures, Proc. Natl. Acad. Sci. USA, 101, 2004, 13210-13215, J. Stelling, E.D. Gilles, and F.J. Doyle III
  • A Distributed State Estimation and Control Algorithm for Plantwide Processes, IEEE Trans. Control Sys. Tech., 11, 2003, 119-127, R. Vadigepalli F.J. Doyle III
  • Inverse Problems in Population Balances: Particle Growth and Nucleation from Dynamic Data, AIChE J., 2002, 981-900, A. Mahoney D. Ramkrishna F.J. Doyle III
  • Modeling of Particle Size Distribution in Emulsion Co-polymerization: Comparison with Experimental Data and Parametric Sensitivity Studies, Comp. Chem. Eng., 26, 2002, 1133-1152, , C.D. Immanuel C.F. Cordeiro E.S. Meadows T.J. Crowley F.J. Doyle III