Bridging the Gap Between Model-Based Design and Reliable Implementation of Feedback-Based Biocircuits: A Systems Inverse Problem Approach
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| Format: | Artículo científico |
| Language: | en |
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Instituto Politécnico Nacional
2017
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| _version_ | 1876459798135832576 |
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| author | Juan Carlos Martinez-Garcia |
| author_facet | Juan Carlos Martinez-Garcia |
| contents | Bridging the Gap Between Model-Based Design and Reliable Implementation of Feedback-Based Biocircuits: A Systems Inverse Problem Approach Juan Carlos Martinez-Garcia Carlos Aguilar-Ibanez Alberto Soria-Lopez Computación Systems biology synthetic biology cyclic feedback biocircuits tuning of mathematical models algebraic parameter reconstruction Our concern is the tuning of mathematical models describing rationally designed genetic biocir- cuits. Based on a deterministic lumped continuous-time approach, we propose a tuning methodology combining both exact algebraic parameter reconstruction and nonlinear parameter estimation of a given model supporting the design of a specific genetic biocircuit, i.e. , we bridge the gap between model-based design and implementation as the solution of a systems inverse problem. As a proof of concept, our proposal is constrained to cyclic feedback systems characterizing synthesized transcriptional networks conditioned to display sustained oscillatory behavior. Our proposed methodology is illustrated via computer–based simu- lations involving the tuning of a state–based model describing a well–know cyclic feedback biocircuit: the celebrated repressilator . Tuning in our case is conceived as a procedure to adjust the parameter values of the mathematical model taking into account for this the actual behavior observed from the corresponding synthesized biocircuit. 2017 artículo científico 1405-5546 https://www.redalyc.org/articulo.oa?id=61551628012 en http://www.redalyc.org/revista.oa?id=615 Computación y Sistemas application/pdf Instituto Politécnico Nacional Computación y Sistemas (México) Num.2 Vol.21 |
| format | Artículo científico |
| id | redalyc_61551628012 |
| institution | Redalyc |
| language | en |
| publishDate | 2017 |
| publisher | Instituto Politécnico Nacional |
| spellingShingle | Bridging the Gap Between Model-Based Design and Reliable Implementation of Feedback-Based Biocircuits: A Systems Inverse Problem Approach Juan Carlos Martinez-Garcia Computación Systems biology synthetic biology cyclic feedback biocircuits tuning of mathematical models algebraic parameter reconstruction Bridging the Gap Between Model-Based Design and Reliable Implementation of Feedback-Based Biocircuits: A Systems Inverse Problem Approach Juan Carlos Martinez-Garcia Carlos Aguilar-Ibanez Alberto Soria-Lopez Computación Systems biology synthetic biology cyclic feedback biocircuits tuning of mathematical models algebraic parameter reconstruction Our concern is the tuning of mathematical models describing rationally designed genetic biocir- cuits. Based on a deterministic lumped continuous-time approach, we propose a tuning methodology combining both exact algebraic parameter reconstruction and nonlinear parameter estimation of a given model supporting the design of a specific genetic biocircuit, i.e. , we bridge the gap between model-based design and implementation as the solution of a systems inverse problem. As a proof of concept, our proposal is constrained to cyclic feedback systems characterizing synthesized transcriptional networks conditioned to display sustained oscillatory behavior. Our proposed methodology is illustrated via computer–based simu- lations involving the tuning of a state–based model describing a well–know cyclic feedback biocircuit: the celebrated repressilator . Tuning in our case is conceived as a procedure to adjust the parameter values of the mathematical model taking into account for this the actual behavior observed from the corresponding synthesized biocircuit. 2017 artículo científico 1405-5546 https://www.redalyc.org/articulo.oa?id=61551628012 en http://www.redalyc.org/revista.oa?id=615 Computación y Sistemas application/pdf Instituto Politécnico Nacional Computación y Sistemas (México) Num.2 Vol.21 |
| title | Bridging the Gap Between Model-Based Design and Reliable Implementation of Feedback-Based Biocircuits: A Systems Inverse Problem Approach |
| topic | Computación Systems biology synthetic biology cyclic feedback biocircuits tuning of mathematical models algebraic parameter reconstruction |
| url | https://www.redalyc.org/articulo.oa?id=61551628012 |