PID and state feedback controllers using DNA strand displacement reactions

Nuno Paulino, Mathias Foo, Jongmin Kim, Declan Bates

Research output: Contribution to journalArticle

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Abstract

Nucleic acid-based chemistry is a strong candidate framework for the construction of future synthetic biomolecular control circuits. Previous work has demonstrated the capacity of circuits based on DNA strand displacement (DSD) reactions to implement digital and analogue signal processing in vivo, including in mammalian cells. To date, however, feedback control system designs attempted within this framework have been restricted to extremely simple proportional or proportional-integral controller architectures. In this letter, we significantly extend the potential complexity of such controllers by showing how time-delays, numerical differentiation (to allow PID control), and state feedback may be implemented via chemical reaction network-based designs. Our controllers are implemented and tested using VisualDSD, a rapid-prototyping tool that allows precise analysis of computational devices implemented using nucleic acids, via both deterministic and stochastic simulations of the DSD reactions.

Original languageEnglish
Article number8721529
Pages (from-to)805-810
Number of pages6
JournalIEEE Control Systems Letters
Volume3
Issue number4
Early online date24 May 2019
DOIs
Publication statusPublished - 1 Oct 2019

Fingerprint

State feedback
State Feedback
DNA
Nucleic acids
Controller
Controllers
Directly proportional
Chemical Reaction Networks
Numerical Differentiation
Control System Design
PID Control
Networks (circuits)
Rapid Prototyping
Three term control systems
Stochastic Simulation
Rapid prototyping
Feedback Systems
Feedback Control
Chemistry
Feedback control

Bibliographical note

© 2019 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

  • Biomolecular systems
  • control applications
  • PID control

ASJC Scopus subject areas

  • Control and Systems Engineering
  • Control and Optimization

Cite this

PID and state feedback controllers using DNA strand displacement reactions. / Paulino, Nuno; Foo, Mathias; Kim, Jongmin; Bates, Declan.

In: IEEE Control Systems Letters, Vol. 3, No. 4, 8721529, 01.10.2019, p. 805-810.

Research output: Contribution to journalArticle

Paulino, Nuno ; Foo, Mathias ; Kim, Jongmin ; Bates, Declan. / PID and state feedback controllers using DNA strand displacement reactions. In: IEEE Control Systems Letters. 2019 ; Vol. 3, No. 4. pp. 805-810.
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