Networked Feedback Systems in Biology - Revision history

Murray at 06:11, 7 December 2025

2025-12-07T06:11:39Z

← Older revision		Revision as of 06:11, 7 December 2025
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	{{righttoc}} This is a joint project with [http://www.cds.caltech.edu/~doyle John Doyle], funded by the [http://www.icb.ucsb.edu/ ARO Institute for Collaborative Biotechnologies]. This page primarily describes the work done in Richard Murray's group.		{{righttoc}} This was a joint project with [http://www.cds.caltech.edu/~doyle John Doyle], funded by the [http://www.icb.ucsb.edu/ ARO Institute for Collaborative Biotechnologies]. This page primarily describes the work done in Richard Murray's group.

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	~~Current~~ participants:		Project participants:
	* {{Vanessa Jonsson}}		* {{Vanessa Jonsson}}
	* {{Ophelia Venturelli}}		* {{Ophelia Venturelli}}
	* {{Enoch Yeung}}		* {{Enoch Yeung}}
	* {{Dan Siegal-Gaskins}}		* {{Dan Siegal-Gaskins}}
	\|
	~~Previous participants:~~
	* Dionysios Barmpoutis		* Dionysios Barmpoutis
	* Mary Dunlop		* Mary Dunlop
	* Per-Ola Forsberg		* Per-Ola Forsberg
			\|
			<br>
	* Elisa Franco		* Elisa Franco
	* Roman Galeev		* Roman Galeev
	\|
	~~<br>~~
	* Arthur Prindle		* Arthur Prindle
	* Henrik Sandberg		* Henrik Sandberg

Murray at 21:23, 26 May 2020

2020-05-26T21:23:07Z

← Older revision		Revision as of 21:23, 26 May 2020
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	{{righttoc}} This is a joint project with [http://www.cds.caltech.edu/~doyle John Doyle], funded by the [http://www.icb.ucsb.edu/ ARO Institute for Collaborative ~~Biotechnology~~]. This page primarily describes the work done in Richard Murray's group.		{{righttoc}} This is a joint project with [http://www.cds.caltech.edu/~doyle John Doyle], funded by the [http://www.icb.ucsb.edu/ ARO Institute for Collaborative Biotechnologies]. This page primarily describes the work done in Richard Murray's group.

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Murray at 02:41, 26 November 2015

2015-11-26T02:41:14Z

← Older revision		Revision as of 02:41, 26 November 2015
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	== Miscellaneous ==		== Miscellaneous ==
	* [http://openwetware.org/wiki/BioControl BioControl Journal Club]		* [http://openwetware.org/wiki/BioControl BioControl Journal Club]

			[[Category:Completed projects]]
			{{#set: agency=ARO ICB \| end date = 2013}}

Murray: /* Publications */

2013-05-13T04:32:25Z

Publications

← Older revision		Revision as of 04:32, 13 May 2013
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	== Publications ==		== Publications ==
			* [http://www.cds.caltech.edu/~murray/papers/2013f_ybm13-cdc.html Modeling Environmental Disturbances with the Chemical Master Equation], Enoch Yeung, James L. Beck, and Richard M. Murray. Submitted, 2013 Conference on Decision and Control (CDC).

	* [http://www.cds.caltech.edu/~murray/papers/2013b_jmm13-cdc.html Reverse Engineering Combination Therapies for Evolutionary Dynamics of Disease: An Hinfty Approach], Vanessa Jonsson, Nikolai Matni and Richard M. Murray. Submitted, 2013 Conference on Decison and Control (CDC).		* [http://www.cds.caltech.edu/~murray/papers/2013b_jmm13-cdc.html Reverse Engineering Combination Therapies for Evolutionary Dynamics of Disease: An Hinfty Approach], Vanessa Jonsson, Nikolai Matni and Richard M. Murray. Submitted, 2013 Conference on Decison and Control (CDC).

			* [http://www.cds.caltech.edu/~murray/papers/2012h_yeu+12-cdc.html Quantifying Crosstalk in Biochemical Systems], Enoch Yeung, Jongmin Kim, Ye Yuan, Jorge Goncalves and Richard M. Murray. 2012 Conference on Decision and Control (CDC).

	* [http://www.cds.caltech.edu/~murray/papers/2012y_vem12-pnas.html Synergistic dual positive feedback loops established by molecular sequestration generate robust bimodal response], Ophelia S. Venturellia, Hana El-Samad and Richard M. Murray. Proceedings of the National Academy of Science (PNAS), 2012.		* [http://www.cds.caltech.edu/~murray/papers/2012y_vem12-pnas.html Synergistic dual positive feedback loops established by molecular sequestration generate robust bimodal response], Ophelia S. Venturellia, Hana El-Samad and Richard M. Murray. Proceedings of the National Academy of Science (PNAS), 2012.

Murray: /* Publications */

2013-05-13T04:29:26Z

Publications

← Older revision		Revision as of 04:29, 13 May 2013
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	== Publications ==		== Publications ==
			* [http://www.cds.caltech.edu/~murray/papers/2013b_jmm13-cdc.html Reverse Engineering Combination Therapies for Evolutionary Dynamics of Disease: An Hinfty Approach], Vanessa Jonsson, Nikolai Matni and Richard M. Murray. Submitted, 2013 Conference on Decison and Control (CDC).

			* [http://www.cds.caltech.edu/~murray/papers/2012y_vem12-pnas.html Synergistic dual positive feedback loops established by molecular sequestration generate robust bimodal response], Ophelia S. Venturellia, Hana El-Samad and Richard M. Murray. Proceedings of the National Academy of Science (PNAS), 2012.

			* {{fdm09-cdc}}
	* {{Dun_08-natgen}}		* {{Dun_08-natgen}}
	* M. J. Dunlop, E. Franco, R. M. Murray. "A Multi-Model Approach to Identification of Biosynthetic Pathways." In Proceedings of the 26th American Control Conference 2007.		* M. J. Dunlop, E. Franco, R. M. Murray. "A Multi-Model Approach to Identification of Biosynthetic Pathways." In Proceedings of the 26th American Control Conference 2007.
	* {{fdm09-cdc}}
	* {{FM08-cdc}}		* {{FM08-cdc}}
	* E. Franco, P. O. Forsberg and R. M. Murray. "Design, modeling and synthesis of an in vitro transcription rate regulatory circuit". American Control Conference, 2008.		* E. Franco, P. O. Forsberg and R. M. Murray. "Design, modeling and synthesis of an in vitro transcription rate regulatory circuit". American Control Conference, 2008.

Murray: /* Objectives */

2012-08-10T17:48:54Z

Objectives

← Older revision		Revision as of 17:48, 10 August 2012
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	\|-		\|-
	\| [[Image:biomolecular-feedback.png\|320px]]<br>		\| [[Image:biomolecular-feedback.png\|320px]]<br>
	Candidate architecture for biomolecular control system. The feedback system consists of the process dynamics, an arrange of molecular sensing systems, an "networked" control system and a collection of actuation mechanisms. The networked control system makes use of an interconnection matrix <~~asmmath~~>L</amsmath>, a set of asynchronous delays (represented by the blocks		Candidate architecture for biomolecular control system. The feedback system consists of the process dynamics, an arrange of molecular sensing systems, an "networked" control system and a collection of actuation mechanisms. The networked control system makes use of an interconnection matrix <amsmath>L</amsmath>, a set of asynchronous delays (represented by the blocks
	labeled <amsmath>\tau</amsmath>) and nonlinear elements <amsmath>N(\cdot)</amsmath>. Internal feedback between the nonlinear block and the interconnection block allows a general set of dynamical systems to be formed from this simple structure.		labeled <amsmath>\tau</amsmath>) and nonlinear elements <amsmath>N(\cdot)</amsmath>. Internal feedback between the nonlinear block and the interconnection block allows a general set of dynamical systems to be formed from this simple structure.
	\|}		\|}

Murray: /* Objectives */

2012-08-10T17:47:46Z

Objectives

← Older revision		Revision as of 17:47, 10 August 2012
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	\|-		\|-
	\| [[Image:biomolecular-feedback.png\|320px]]<br>		\| [[Image:biomolecular-feedback.png\|320px]]<br>
	Candidate architecture for biomolecular control system. The feedback system consists of the process dynamics, an arrange of molecular sensing systems, an "networked" control system and a collection of actuation mechanisms. The networked control system makes use of an interconnection matrix <~~math~~>L</~~math~~>, a set of asynchronous delays (represented by the blocks		Candidate architecture for biomolecular control system. The feedback system consists of the process dynamics, an arrange of molecular sensing systems, an "networked" control system and a collection of actuation mechanisms. The networked control system makes use of an interconnection matrix <asmmath>L</amsmath>, a set of asynchronous delays (represented by the blocks
	labeled <~~math~~>\tau</~~math~~>) and nonlinear elements <~~math~~>N(\cdot)</~~math~~>. Internal feedback between the nonlinear block and the interconnection block allows a general set of dynamical systems to be formed from this simple structure.		labeled <amsmath>\tau</amsmath>) and nonlinear elements <amsmath>N(\cdot)</amsmath>. Internal feedback between the nonlinear block and the interconnection block allows a general set of dynamical systems to be formed from this simple structure.
	\|}		\|}
	This project explores the application of theoretical approaches to complex systems in the domain of biological networks. Our focus is twofold: on the development and application of analytical tools for the analysis and design of complex networks, and on the use of those techniques to construct novel biological circuits for feedback control of cellular processes. Specific activites include:		This project explores the application of theoretical approaches to complex systems in the domain of biological networks. Our focus is twofold: on the development and application of analytical tools for the analysis and design of complex networks, and on the use of those techniques to construct novel biological circuits for feedback control of cellular processes. Specific activites include:

Murray: /* Objectives */

2012-08-10T17:43:09Z

Objectives

← Older revision		Revision as of 17:43, 10 August 2012
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	== Objectives ==		== Objectives ==
	{\| ~~align~~=right width=40% border=1		{\| style="float: right" width=40% border=1
	\|-		\|-
	\| [[Image:biomolecular-feedback.png\|320px]]<br>		\| [[Image:biomolecular-feedback.png\|320px]]<br>

Murray at 04:50, 23 July 2012

2012-07-23T04:50:28Z

← Older revision		Revision as of 04:50, 23 July 2012
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	* {{Ophelia Venturelli}}		* {{Ophelia Venturelli}}
	* {{Enoch Yeung}}		* {{Enoch Yeung}}
			* {{Dan Siegal-Gaskins}}
	\|		\|
	Previous participants:		Previous participants:

Murray at 17:25, 9 June 2012

2012-06-09T17:25:55Z

← Older revision		Revision as of 17:25, 9 June 2012
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	\| width=50% \|		\| width=50% \|
	Current participants:		Current participants:
	* Vanessa Jonsson		* {{Vanessa Jonsson}}
	* {{Ophelia Venturelli}}		* {{Ophelia Venturelli}}
			* {{Enoch Yeung}}
	\|		\|
	Previous participants:		Previous participants: