Bridging the Gap Between Model-Based Design and Reliable Implementation of Feedback-Based Biocircuits: A Systems Inverse Problem Approach



Document title: Bridging the Gap Between Model-Based Design and Reliable Implementation of Feedback-Based Biocircuits: A Systems Inverse Problem Approach
Journal: Computación y sistemas
Database: PERIÓDICA
System number: 000423231
ISSN: 1405-5546
Authors: 1
2
1
Institutions: 1Instituto Politécnico Nacional, Centro de Investigación y de Estudios Avanzados, Ciudad de México. México
2Instituto Politécnico Nacional, Centro de Investigación en Computación, Ciudad de México. México
Year:
Season: Abr-Jun
Volumen: 21
Number: 2
Country: México
Language: Inglés
Document type: Artículo
Approach: Experimental, aplicado
English abstract Our concern is the tuning of mathematical models describing rationally designed genetic biocircuits. 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
Disciplines: Biología,
Ciencias de la computación
Keyword: Procesamiento de datos,
Biología de sistemas,
Biología sintética,
Modelos matemáticos,
Sistemas de identificación basados en observadores,
Redes sintéticas transcripcionales,
Biocircuitos de retroalimentación cíclica
Keyword: Data processing,
Systems biology,
Synthetic biology,
Mathematical models,
Observer based system identification,
Synthetic transcriptional networks,
Cyclic feedback biocircuits
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