Load Capacity Improvements in Nucleic Acid Based Systems Using Discrete-Time Feedback Control

Hamidreza Jafarnejadsani, Jongmin Kim, Vishwesh Kulkarni, Naira Hovakimyan

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Kim and Winfree have synthesized a well-known network of transcriptional oscillators in vitro using a modular architecture of synthetic gene analogues and a few enzymes that, in turn, could be used to drive a variety of downstream circuits and nanodevices. However, these oscillators are sensitive to initial conditions and downstream load processes. Furthermore, the oscillations are not sustained since the inherently closed design suffers from enzyme deactivation, NTP fuel exhaustion, and waste product build up. Recently, we had shown that a partially open architecture in which a continuous-Time L1 adaptive controller, implemented inside an in silico computer that resides outside the wet-lab apparatus, can ensure sustained tunable oscillations in two specific designs of the Kim-Winfree oscillator networks. Here, we present its discrete-Time version. As before, we consider two broad cases of operation: (1) the oscillator network operating in isolation, and (2) the oscillator network driving a DNA tweezer subject to a variable load. In both scenarios, our simulation results show a significant improvement in the tunability and robustness of these oscillator networks. Our approach can be easily adopted to improve the loading capacity of a wide range of synthetic biological devices.

Original languageEnglish (US)
Title of host publication2018 5th International Conference on Control, Decision and Information Technologies, CoDIT 2018
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages1-6
Number of pages6
ISBN (Electronic)9781538650653
DOIs
StatePublished - Jun 22 2018
Event5th International Conference on Control, Decision and Information Technologies, CoDIT 2018 - Thessaloniki, Greece
Duration: Apr 10 2018Apr 13 2018

Publication series

Name2018 5th International Conference on Control, Decision and Information Technologies, CoDIT 2018

Other

Other5th International Conference on Control, Decision and Information Technologies, CoDIT 2018
CountryGreece
CityThessaloniki
Period4/10/184/13/18

ASJC Scopus subject areas

  • Computer Networks and Communications
  • Decision Sciences (miscellaneous)
  • Control and Optimization
  • Hardware and Architecture
  • Information Systems
  • Control and Systems Engineering

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