Unpublished conference/Abstract (Scientific congresses, symposiums and conference proceedings)
Application of robust model validation using SOSTOOLS to the study of G-Protein signalling in yeast
Yi, T.; Fazel, M.; Liu, X. et al.
2005First International Conference on Foundations of Systems Biology in Engineering (FOSBE 2005)
 

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Keywords :
G-protein; signal transduction; biological models; parameter estimation; semidefinite programming
Abstract :
[en] Two major methodological challenges in modeling biological systems are model (in)validation and parameter estimation. The traditional approach is to fit the model parameters to data. An alternative approach pioneered by Packard, Frenklach, Seiler and colleagues (Frenklach et al., 2002) defines the range of parameter values that is consistent with the data while taking into account parametric and data uncertainty. If an invalidation certificate is found, the feasible parameter space is proved empty; otherwise, attempts to describe the feasible parameter space are carried out. We refer to this methodology as Robust Model Validation (RMV). Here we perform RMV using sum of squares (SOS) programs implemented by the MATLAB toolbox SOSTOOLS (Prajna et al., 2002). The principal advantage of SOS over conventional semidefinite programming (SDP) techniques such as the Sprocedure is the possibility of using higher-order multipliers to obtain tighter parameter bounds. We applied SOSTOOLS to a simple model of the yeast heterotrimeric G-protein cycle. We were able to invalidate the model based on real experimental data. Furthermore, using synthetic data that did not invalidate the model, we explored different techniques for representing the feasible parameter space.
Disciplines :
Engineering, computing & technology: Multidisciplinary, general & others
Author, co-author :
Yi, T.
Fazel, M.
Liu, X.
Otitoju, T.
Goncalves, Jorge ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB)
Papchristodoulou, A.
Prajna, S.
Doyle, J.
Language :
English
Title :
Application of robust model validation using SOSTOOLS to the study of G-Protein signalling in yeast
Publication date :
2005
Event name :
First International Conference on Foundations of Systems Biology in Engineering (FOSBE 2005)
Event place :
Santa Barbara, United States
Event date :
August 7-10, 2005
Additional URL :
Available on ORBilu :
since 18 March 2015

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