A differentiable reformulation for E-optimal design of experiments in nonlinear dynamic biosystems

DOI10.1016/J.MBS.2015.02.006MaRDI QIDQ494485zbMATH OpenOpenAlexWikidataFDO

Authors Yong-Cai Geng, Sumit K. Garg

Publication date 1 September 2015

Published in Mathematical Biosciences (Search for Journal in Brave)

Full work available at URL https://lirias.kuleuven.be/handle/123456789/489502

zbMATH Keywords

dynamic optimizationminimum eigenvalue optimizationnonlinear matrix inequalitypredictive microbiologySylvester's criterion

Mathematics Subject Classification ID

Statistical aspects of information-theoretic topics (62B10) Robust parameter designs (62K25) Applications of statistics to biology and medical sciences; meta analysis (62P10) Minimax problems in mathematical programming (90C47) General biology and biomathematics (92B05)

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Cites work

• \texttt{ACADO toolkit} -- an open-source framework for automatic control and dynamic optimization
• Horwitz’s Rule, Transforming Both Sides and the Design of Experiments for Mechanistic Models
• Identification of parametric models from experimental data. Transl. from an upd. French version by the authors, with the help of John Norton
• Numerical methods for optimal control problems in design of robust optimal experiments for nonlinear dynamic processes
• Numerical methods for optimum experimental design in DAE systems
• Numerical parameter identifiability and estimability: Integrating identifiability, estimability, and optimal sampling design
• On the implementation of an interior-point filter line-search algorithm for large-scale nonlinear programming
• Optimal experimental design for discriminating between microbial growth models as function of suboptimal temperature
• Optimum Experimental Designs for Properties of a Compartmental Model
• Parameter uncertainty in biochemical models described by ordinary differential equations
• qpOASES: a parametric active-set algorithm for~quadratic programming
• Recent developments in parameter estimation and structure identification of biochemical and genomic systems
• Robust experiment design via maximin optimization
• Robust experiment design via stochastic approximation
• Semidefinite Programming
• Simultaneous versus sequential optimal experiment design for the identification of multi-parameter microbial growth kinetics as a function of temperature
• Using SeDuMi 1.02, A Matlab toolbox for optimization over symmetric cones

Describes a project that uses

Uses Software

• SeDuMi
• VPLAN
• ACADO
• Ipopt
• qpOASES

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