Robustness analysis of DNA-based biomolecular feedback controllers to parametric and time delay uncertainties

Rucha Sawlekar, Mathias Foo, Declan G. Bates

Research output: Research - peer-reviewConference proceeding

Abstract

— Recent advances in DNA computing have greatly facilitated the design of biomolecular circuitry based on DNA strand displacement reactions. An important issue to consider in the design process for such circuits is the effect of biological and experimental uncertainties on the functionality and reliability of the overall circuit. In the case of biomolecular feedback control circuits, such uncertainties could lead to a range of adverse effects, including achieving wrong concentration levels, sluggish performance and even instability. In this paper, we analyse the robustness properties of two biomolecular feedback controllers; a classical linear proportional integral (PI) and a re-cently proposed nonlinear quasi sliding mode (QSM) controller, subject to uncertainties in the experimentally implemented rates of their underlying chemical reactions, and to variations in accumulative time delays in the process to be controlled. Our results show that the nonlinear QSM controller is significantly more robust against investigated uncertainties, highlighting its potential as a practically implementable biomolecular feedback controller for future synthetic biology applications.

Publisher Statement: © 2017 IEEE. Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works.
LanguageEnglish
Title of host publicationProceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages548-551
Number of pages4
ISBN (Electronic)978-1-5090-2959-4
ISBN (Print)978-1-5090-2960-0
DOIs
StatePublished - 25 Jan 2017
Event2016 IEEE Biomedical Circuits and Systems Conference - Shanghai, China
Duration: 17 Oct 201619 Oct 2016

Publication series

NameProceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016

Conference

Conference2016 IEEE Biomedical Circuits and Systems Conference
Abbreviated titleBioCAS
CountryChina
CityShanghai
Period17/10/1619/10/16

Fingerprint

Time delay
Feedback
Controllers
Networks (circuits)
Feedback control
Marketing
Chemical reactions
Servers
Uncertainty

Bibliographical note

© 2017 IEEE. Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works.

Keywords

  • Process control
  • Delay effects
  • DNA
  • Robustness
  • Chemicals
  • Control systems

Cite this

Sawlekar, R., Foo, M., & Bates, D. G. (2017). Robustness analysis of DNA-based biomolecular feedback controllers to parametric and time delay uncertainties. In Proceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016 (pp. 548-551). (Proceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016). Institute of Electrical and Electronics Engineers Inc.. DOI: 10.1109/BioCAS.2016.7833853

Robustness analysis of DNA-based biomolecular feedback controllers to parametric and time delay uncertainties. / Sawlekar, Rucha; Foo, Mathias; Bates, Declan G.

Proceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016. Institute of Electrical and Electronics Engineers Inc., 2017. p. 548-551 (Proceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016).

Research output: Research - peer-reviewConference proceeding

Sawlekar, R, Foo, M & Bates, DG 2017, Robustness analysis of DNA-based biomolecular feedback controllers to parametric and time delay uncertainties. in Proceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016. Proceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016, Institute of Electrical and Electronics Engineers Inc., pp. 548-551, 2016 IEEE Biomedical Circuits and Systems Conference, Shanghai, China, 17/10/16. DOI: 10.1109/BioCAS.2016.7833853
Sawlekar R, Foo M, Bates DG. Robustness analysis of DNA-based biomolecular feedback controllers to parametric and time delay uncertainties. In Proceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016. Institute of Electrical and Electronics Engineers Inc.2017. p. 548-551. (Proceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016). Available from, DOI: 10.1109/BioCAS.2016.7833853
Sawlekar, Rucha ; Foo, Mathias ; Bates, Declan G./ Robustness analysis of DNA-based biomolecular feedback controllers to parametric and time delay uncertainties. Proceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016. Institute of Electrical and Electronics Engineers Inc., 2017. pp. 548-551 (Proceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016).
@inbook{bba241db049b4c94b6644764fe6be69a,
title = "Robustness analysis of DNA-based biomolecular feedback controllers to parametric and time delay uncertainties",
abstract = "— Recent advances in DNA computing have greatly facilitated the design of biomolecular circuitry based on DNA strand displacement reactions. An important issue to consider in the design process for such circuits is the effect of biological and experimental uncertainties on the functionality and reliability of the overall circuit. In the case of biomolecular feedback control circuits, such uncertainties could lead to a range of adverse effects, including achieving wrong concentration levels, sluggish performance and even instability. In this paper, we analyse the robustness properties of two biomolecular feedback controllers; a classical linear proportional integral (PI) and a re-cently proposed nonlinear quasi sliding mode (QSM) controller, subject to uncertainties in the experimentally implemented rates of their underlying chemical reactions, and to variations in accumulative time delays in the process to be controlled. Our results show that the nonlinear QSM controller is significantly more robust against investigated uncertainties, highlighting its potential as a practically implementable biomolecular feedback controller for future synthetic biology applications.Publisher Statement: © 2017 IEEE. Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works.",
keywords = "Process control, Delay effects, DNA, Robustness, Chemicals, Control systems",
author = "Rucha Sawlekar and Mathias Foo and Bates, {Declan G.}",
note = "© 2017 IEEE. Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works.",
year = "2017",
month = "1",
doi = "10.1109/BioCAS.2016.7833853",
isbn = "978-1-5090-2960-0",
series = "Proceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016",
publisher = "Institute of Electrical and Electronics Engineers Inc.",
pages = "548--551",
booktitle = "Proceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016",
address = "United States",

}

TY - CHAP

T1 - Robustness analysis of DNA-based biomolecular feedback controllers to parametric and time delay uncertainties

AU - Sawlekar,Rucha

AU - Foo,Mathias

AU - Bates,Declan G.

N1 - © 2017 IEEE. Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works.

PY - 2017/1/25

Y1 - 2017/1/25

N2 - — Recent advances in DNA computing have greatly facilitated the design of biomolecular circuitry based on DNA strand displacement reactions. An important issue to consider in the design process for such circuits is the effect of biological and experimental uncertainties on the functionality and reliability of the overall circuit. In the case of biomolecular feedback control circuits, such uncertainties could lead to a range of adverse effects, including achieving wrong concentration levels, sluggish performance and even instability. In this paper, we analyse the robustness properties of two biomolecular feedback controllers; a classical linear proportional integral (PI) and a re-cently proposed nonlinear quasi sliding mode (QSM) controller, subject to uncertainties in the experimentally implemented rates of their underlying chemical reactions, and to variations in accumulative time delays in the process to be controlled. Our results show that the nonlinear QSM controller is significantly more robust against investigated uncertainties, highlighting its potential as a practically implementable biomolecular feedback controller for future synthetic biology applications.Publisher Statement: © 2017 IEEE. Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works.

AB - — Recent advances in DNA computing have greatly facilitated the design of biomolecular circuitry based on DNA strand displacement reactions. An important issue to consider in the design process for such circuits is the effect of biological and experimental uncertainties on the functionality and reliability of the overall circuit. In the case of biomolecular feedback control circuits, such uncertainties could lead to a range of adverse effects, including achieving wrong concentration levels, sluggish performance and even instability. In this paper, we analyse the robustness properties of two biomolecular feedback controllers; a classical linear proportional integral (PI) and a re-cently proposed nonlinear quasi sliding mode (QSM) controller, subject to uncertainties in the experimentally implemented rates of their underlying chemical reactions, and to variations in accumulative time delays in the process to be controlled. Our results show that the nonlinear QSM controller is significantly more robust against investigated uncertainties, highlighting its potential as a practically implementable biomolecular feedback controller for future synthetic biology applications.Publisher Statement: © 2017 IEEE. Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works.

KW - Process control

KW - Delay effects

KW - DNA

KW - Robustness

KW - Chemicals

KW - Control systems

U2 - 10.1109/BioCAS.2016.7833853

DO - 10.1109/BioCAS.2016.7833853

M3 - Conference proceeding

SN - 978-1-5090-2960-0

T3 - Proceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016

SP - 548

EP - 551

BT - Proceedings - 2016 IEEE Biomedical Circuits and Systems Conference, BioCAS 2016

PB - Institute of Electrical and Electronics Engineers Inc.

ER -