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Analysis of a digital clock for molecular computing

Ugander, Johan LU ; Dunlop, Mary J. and Murray, Richard M. (2007) American Control Conference, 2007 In American Control Conference, 2007, vols 1-13 p.2678-2682
Abstract
The control of synthetic genetic regulatory networks is an emerging engineering challenge. In this study, we propose a new synthetic genetic network that behaves as a digital clock, producing square waveform oscillations. We analyze two models of the network: a deterministic model based on Michaelis-Menten kinetics, as well as a stochastic model based on the Gillespie algorithm. Both models predict regions of oscillatory behavior; the deterministic model provides insight into the conditions required to produce the oscillating clock-like behavior, while the stochastic model is truer to natural dynamics. Intracellular stochasticity is seen to contribute phase noise to the oscillator, and we propose improvements for the network and discuss... (More)
The control of synthetic genetic regulatory networks is an emerging engineering challenge. In this study, we propose a new synthetic genetic network that behaves as a digital clock, producing square waveform oscillations. We analyze two models of the network: a deterministic model based on Michaelis-Menten kinetics, as well as a stochastic model based on the Gillespie algorithm. Both models predict regions of oscillatory behavior; the deterministic model provides insight into the conditions required to produce the oscillating clock-like behavior, while the stochastic model is truer to natural dynamics. Intracellular stochasticity is seen to contribute phase noise to the oscillator, and we propose improvements for the network and discuss the conceptual foundations of these improvements. (Less)
Please use this url to cite or link to this publication:
author
organization
publishing date
type
Chapter in Book/Report/Conference proceeding
publication status
published
subject
in
American Control Conference, 2007, vols 1-13
pages
2678 - 2682
publisher
IEEE--Institute of Electrical and Electronics Engineers Inc.
conference name
American Control Conference, 2007
external identifiers
  • wos:000252258801210
  • scopus:46449092551
ISSN
0743-1619
ISBN
1-4244-0988-8
DOI
10.1109/ACC.2007.4282583
language
English
LU publication?
yes
id
bc6b9943-2fc6-4ac6-832a-6cacb0907926 (old id 1407732)
date added to LUP
2009-06-02 09:38:23
date last changed
2017-01-01 07:28:05
@inproceedings{bc6b9943-2fc6-4ac6-832a-6cacb0907926,
  abstract     = {The control of synthetic genetic regulatory networks is an emerging engineering challenge. In this study, we propose a new synthetic genetic network that behaves as a digital clock, producing square waveform oscillations. We analyze two models of the network: a deterministic model based on Michaelis-Menten kinetics, as well as a stochastic model based on the Gillespie algorithm. Both models predict regions of oscillatory behavior; the deterministic model provides insight into the conditions required to produce the oscillating clock-like behavior, while the stochastic model is truer to natural dynamics. Intracellular stochasticity is seen to contribute phase noise to the oscillator, and we propose improvements for the network and discuss the conceptual foundations of these improvements.},
  author       = {Ugander, Johan and Dunlop, Mary J. and Murray, Richard M.},
  booktitle    = {American Control Conference, 2007, vols 1-13},
  isbn         = {1-4244-0988-8},
  issn         = {0743-1619},
  language     = {eng},
  pages        = {2678--2682},
  publisher    = {IEEE--Institute of Electrical and Electronics Engineers Inc.},
  title        = {Analysis of a digital clock for molecular computing},
  url          = {http://dx.doi.org/10.1109/ACC.2007.4282583},
  year         = {2007},
}