Bridging the gap between design and reality: A dual evolutionary strategy for the design of synthetic genetic circuits

J. S. Hallinan; S. Park; A. Wipat

doi:10.5220/0003887002630268

Bridging the gap between design and reality: A dual evolutionary strategy for the design of synthetic genetic circuits

J. S. Hallinan^*, S. Park, A. Wipat

^*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceeding › Conference proceeding contribution › peer-review

3 Citations (Scopus)

Abstract

Computational design is essential to the field of synthetic biology, particularly as its practitioners become more ambitious, and system designs become larger and more complex. However, computational models derived from abstract designs are unlikely to behave in the same way as organisms engineered from those same designs. We propose an automated, iterative strategy involving evolution both in silico and in vivo, with feedback between strands as necessary, combined with automated reasoning. This system can help bridge the gap between the behaviour of computational models and that of engineered organisms in as rapid and cost-effective a manner as possible.

Original language	English
Title of host publication	BIOINFORMATICS 2012 - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms
Editors	Jan Schier, Carlos Correia, Ana Fred, Hugo Gamboa
Place of Publication	Portugal
Publisher	SciTePress
Pages	263-268
Number of pages	6
ISBN (Print)	9789898425904
DOIs	https://doi.org/10.5220/0003887002630268
Publication status	Published - 2012
Externally published	Yes
Event	International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2012 - Vilamoura, Algarve, Portugal Duration: 1 Feb 2012 → 4 Feb 2012

Other

Other	International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2012
Country/Territory	Portugal
City	Vilamoura, Algarve
Period	1/02/12 → 4/02/12

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10.5220/0003887002630268

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Hallinan, J. S., Park, S., & Wipat, A. (2012). Bridging the gap between design and reality: A dual evolutionary strategy for the design of synthetic genetic circuits. In J. Schier, C. Correia, A. Fred, & H. Gamboa (Eds.), BIOINFORMATICS 2012 - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms (pp. 263-268). SciTePress. https://doi.org/10.5220/0003887002630268

Hallinan, J. S. ; Park, S. ; Wipat, A. / Bridging the gap between design and reality : A dual evolutionary strategy for the design of synthetic genetic circuits. BIOINFORMATICS 2012 - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms. editor / Jan Schier ; Carlos Correia ; Ana Fred ; Hugo Gamboa. Portugal : SciTePress, 2012. pp. 263-268

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abstract = "Computational design is essential to the field of synthetic biology, particularly as its practitioners become more ambitious, and system designs become larger and more complex. However, computational models derived from abstract designs are unlikely to behave in the same way as organisms engineered from those same designs. We propose an automated, iterative strategy involving evolution both in silico and in vivo, with feedback between strands as necessary, combined with automated reasoning. This system can help bridge the gap between the behaviour of computational models and that of engineered organisms in as rapid and cost-effective a manner as possible.",

author = "Hallinan, {J. S.} and S. Park and A. Wipat",

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Hallinan, JS, Park, S & Wipat, A 2012, Bridging the gap between design and reality: A dual evolutionary strategy for the design of synthetic genetic circuits. in J Schier, C Correia, A Fred & H Gamboa (eds), BIOINFORMATICS 2012 - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms. SciTePress, Portugal, pp. 263-268, International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2012, Vilamoura, Algarve, Portugal, 1/02/12. https://doi.org/10.5220/0003887002630268

Bridging the gap between design and reality: A dual evolutionary strategy for the design of synthetic genetic circuits. / Hallinan, J. S.; Park, S.; Wipat, A.
BIOINFORMATICS 2012 - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms. ed. / Jan Schier; Carlos Correia; Ana Fred; Hugo Gamboa. Portugal: SciTePress, 2012. p. 263-268.

Research output: Chapter in Book/Report/Conference proceeding › Conference proceeding contribution › peer-review

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AB - Computational design is essential to the field of synthetic biology, particularly as its practitioners become more ambitious, and system designs become larger and more complex. However, computational models derived from abstract designs are unlikely to behave in the same way as organisms engineered from those same designs. We propose an automated, iterative strategy involving evolution both in silico and in vivo, with feedback between strands as necessary, combined with automated reasoning. This system can help bridge the gap between the behaviour of computational models and that of engineered organisms in as rapid and cost-effective a manner as possible.

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Hallinan JS, Park S, Wipat A. Bridging the gap between design and reality: A dual evolutionary strategy for the design of synthetic genetic circuits. In Schier J, Correia C, Fred A, Gamboa H, editors, BIOINFORMATICS 2012 - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms. Portugal: SciTePress. 2012. p. 263-268 doi: 10.5220/0003887002630268

Bridging the gap between design and reality: A dual evolutionary strategy for the design of synthetic genetic circuits

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