ArticleJournal of biomedicine & biotechnology2011
Robust design of biological circuits: evolutionary systems biology approach.
Article in Journal of biomedicine & biotechnology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- GCAD: A Computational Framework for Mammalian Genetic Program Computer-Aided Design.ACS synthetic biology · 2026Article
- GCAD: a Computational Framework for Mammalian Genetic Program Computer-Aided Design.bioRxiv : the preprint server for biology · 2025Article
- Darwin's agential materials: evolutionary implications of multiscale competency in developmental biology.Cellular and molecular life sciences : CMLS · 2023Review
- Mathematical Modelling in Plant Synthetic Biology.Methods in molecular biology (Clifton, N.J.) · 2022Review
- Article
- Using Nonlinear Stochastic Evolutionary Game Strategy to Model an Evolutionary Biological Network of Organ Carcinogenesis Under a Natural Selection Scheme.Evolutionary bioinformatics online · 2015Article
- Multiple target drug cocktail design for attacking the core network markers of four cancers using ligand-based and structure-based virtual screening methods.BMC medical genomics · 2015Article
- Period doubling induced by thermal noise amplification in genetic circuits.Scientific reports · 2014Article
- The stochastic evolutionary game for a population of biological networks under natural selection.Evolutionary bioinformatics online · 2014Article
- Article
- Current challenges in bacterial transcriptomics.Genomics & informatics · 2013Article
- A Unifying Mathematical Framework for Genetic Robustness, Environmental Robustness, Network Robustness and their Trade-off on Phenotype Robustness in Biological Networks Part I: Gene Regulatory Networks in Systems and Evolutionary Biology.Evolutionary bioinformatics online · 2013Article
- A Unifying Mathematical Framework for Genetic Robustness, Environmental Robustness, Network Robustness and their Trade-offs on Phenotype Robustness in Biological Networks. Part III: Synthetic Gene Networks in Synthetic Biology.Evolutionary bioinformatics online · 2013Article
- A computational pipeline for identifying kinetic motifs to aid in the design and improvement of synthetic gene circuits.BMC bioinformatics · 2013Article
- Systems approaches for synthetic biology: a pathway toward mammalian design.Frontiers in physiology · 2013Article
- On the Interplay between the Evolvability and Network Robustness in an Evolutionary Biological Network: A Systems Biology Approach.Evolutionary bioinformatics online · 2011Article
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3 authors.
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Abstract
Artificial gene circuits have been proposed to be embedded into microbial cells that function as switches, timers, oscillators, and the Boolean logic gates. Building more complex systems from these basic gene circuit components is one key advance for biologic circuit design and synthetic biology. However, the behavior of bioengineered gene circuits remains unstable and uncertain. In this study, a nonlinear stochastic system is proposed to model the biological systems with intrinsic parameter fluctuations and environmental molecular noise from the cellular context in the host cell. Based on evolutionary systems biology algorithm, the design parameters of target gene circuits can evolve to specific values in order to robustly track a desired biologic function in spite of intrinsic and environmental noise. The fitness function is selected to be inversely proportional to the tracking error so that the evolutionary biological circuit can achieve the optimal tracking mimicking the evolutionary process of a gene circuit. Finally, several design examples are given in silico with the Monte Carlo simulation to illustrate the design procedure and to confirm the robust performance of the proposed design method. The result shows that the designed gene circuits can robustly track desired behaviors with minimal errors even with nontrivial intrinsic and external noise.
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