Afnan Alagha

Ahmed Alsaedi

Ajo-Franklin C. M.

Alexey Zaikin

Anderson J. C.

Andrianantoandro E.

Atkinson M. R.

Balazsi G.

Balsalobre A.

Bonnet J.

Bratsun D.

Cambras T.

Carr A. F.

Carr A. J.

Cohen M.

Danino T.

Darren Nesbeth

Ekkehard Ullner

Eldar A.

Elowitz M. B.

Fernando C. T.

Fraser A.

Friedland A. E.

Fung E.

García-Ojalvo J.

Gardner T. S.

Glass L.

Golomb D.

Gonze D.

Granados-Fuentes D.

Gurdon J. B.

Han S. K.

Hastings M. H.

Herzog E. D.

Hogenesch J. B.

Hänggi P.

Inagaki N.

Khalil A. S.

King D. P.

Kiss I. Z.

Ko C. H.

Kobayashi H.

Koseska A.

Levskaya A.

Lewis J.

Liu T.

Lu T. K.

Lutz R.

Maywood E. S.

McClung C. R.

McMillen D.

Meinhardt H.

Moran L. A.

Munsky B.

Murray-Zmijewski F.

Müller K.

Nicolis G.

Ohta H.

Pokhilko A.

Purcell O.

Quintero J. E.

Raser J. M.

Ruder W. C.

Siuti P.

Stricker J.

Swain P.

Tabor J. J.

Tamsir A.

Tigges M.

Tiwari A. F.

Ullner E.

Volkov E. I.

Wang W.

Weber W.

Westermark P. O.

Yamaguchi S.

Yamazaki S.

Yanika Borg

Ye H.

You L.

International Journal of Modern Physics B

English

One aim of synthetic biology is to construct increasingly complex genetic networks from interconnected simpler ones to address challenges in medicine and biotechnology. However, as systems increase in size and complexity, emergent properties lead to unexpected and complex dynamics due to nonlinear and nonequilibrium properties from component interactions. We focus on four different studies of biological systems which exhibit complex and unexpected dynamics. Using simple synthetic genetic networks, small and large populations of phase-coupled quorum sensing repressilators, Goodwin oscillators, and bistable switches, we review how coupled and stochastic components can result in clustering, chaos, noise-induced coherence and speed-dependent decision making. A system of repressilators exhibits oscillations, limit cycles, steady states or chaos depending on the nature and strength of the coupling mechanism. In large repressilator networks, rich dynamics can also be exhibited, such as clustering and chaos. In populations of Goodwin oscillators, noise can induce coherent oscillations. In bistable systems, the speed with which incoming external signals reach steady state can bias the network towards particular attractors. These studies showcase the range of dynamical behavior that simple synthetic genetic networks can exhibit. In addition, they demonstrate the ability of mathematical modeling to analyze nonlinearity and inhomogeneity within these systems.</jats:p

Crossref

Complex and unexpected dynamics in simple genetic regulatory networks

One aim of synthetic biology is to construct increasingly complex genetic networks from interconnected simpler ones to address challenges in medicine and biotechnology. However, as systems increase in size and complexity, emergent properties lead to unexpected and complex dynamics due to nonlinear and nonequilibrium properties from component interactions. We focus on four different studies of biological systems which exhibit complex and unexpected dynamics. Using simple synthetic genetic networks, small and large populations of phase-coupled quorum sensing repressilators, Goodwin oscillators, and bistable switches, we review how coupled and stochastic components can result in clustering, chaos, noise-induced coherence and speed-dependent decision making. A system of repressilators exhibits oscillations, limit cycles, steady states or chaos depending on the nature and strength of the coupling mechanism. In large repressilator networks, rich dynamics can also be exhibited, such as clustering and chaos. In populations of Goodwin oscillators, noise can induce coherent oscillations. In bistable systems, the speed with which incoming external signals reach steady state can bias the network towards particular attractors. These studies showcase the range of dynamical behavior that simple synthetic genetic networks can exhibit. In addition, they demonstrate the ability of mathematical modeling to analyze nonlinearity and inhomogeneity within these systems

Borg, Y

Ullner, E

Alagha, A

Alsaedi, A

Nesbeth, D

Zaikin, A

UCL Discovery

Borg, Yanika

Ullner, Ekkehard

Alagha, Afnan

Alsaedi, Ahmed

Nesbeth, Darren

Zaikin, Alexey

Aberdeen University Research

1430006-31 I n t . J . M o d . P h y s . B . . D o w n l o a d e d f r o m w w w . w o r l d s c i e n t i f i c . c o m b y

1430006-32 I n t . J . M o d . P h y s . B . . D o w n l o a d e d f r o m w w w . w o r l d s c i e n t i f i c . c o m b y

1430006-33 I n t . J . M o d . P h y s . B . . D o w n l o a d e d f r o m w w w . w o r l d s c i e n t i f i c . c o m b y

1430006-34 I n t . J . M o d . P h y s . B . . D o w n l o a d e d f r o m w w w . w o r l d s c i e n t i f i c . c o m b y

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https://aura.abdn.ac.uk/bitstream/2164/3403/1/Complex_and_unexpected_dynamics.pdf

Complex and unexpected dynamics in simple genetic regulatory networks

Abstract

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UCL Discovery

Aberdeen University Research