Designing Biological Circuits: From Principles to Applications

On 12 March, 2022

Genetic circuit design is a well-studied problem in synthetic biology. Ever since the first genetic circuits─the repressilator and the toggle switch─were designed and implemented, many advances have been made in this area of research. The current review systematically organizes a number of key works in this domain by employing the versatile framework of generalized morphological analysis. Literature in the area has been mapped on the basis of (a) the design methodologies used, ranging from brute-force searches to control-theoretic approaches, (b) the modeling techniques employed, (c) various circuit functionalities implemented, (d) key design characteristics, and (e) the strategies used for the robust design of genetic circuits. We conclude our review with an outlook on multiple exciting areas for future research, based on the systematic assessment of key research gaps that have been readily unravelled by our analysis framework.

Original Paper: 

  • [DOI] D. Chakraborty, R. Rengaswamy, and K. Raman, “Designing Biological Circuits: From Principles to Applications,” ACS Synthetic Biology, vol. 11, iss. 4, pp. 1377-1388, 2022.
    [bibtex]
    @article{Chakraborty2022Designing,
      title = {Designing {{Biological Circuits}}: {{From Principles}} to {{Applications}}},
      shorttitle = {Designing {{Biological Circuits}}},
      author = {Chakraborty, Debomita and Rengaswamy, Raghunathan and Raman, Karthik},
      year = {2022},
      month = apr,
      journal = {ACS Synthetic Biology},
      volume = {11},
      number = {4},
      pages = {1377--1388},
      doi = {10.1021/acssynbio.1c00557},
      abstract = {Genetic circuit design is a well-studied problem in synthetic biology. Ever since the first genetic circuits-the repressilator and the toggle switch-were designed and implemented, many advances have been made in this area of research. The current review systematically organizes a number of key works in this domain by employing the versatile framework of generalized morphological analysis. Literature in the area has been mapped on the basis of (a) the design methodologies used, ranging from brute-force searches to control-theoretic approaches, (b) the modeling techniques employed, (c) various circuit functionalities implemented, (d) key design characteristics, and (e) the strategies used for the robust design of genetic circuits. We conclude our review with an outlook on multiple exciting areas for future research, based on the systematic assessment of key research gaps that have been readily unravelled by our analysis framework.}
    }

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