SURF 2008 - Revision history

Murray: /* Alice */

2008-01-25T01:48:38Z

Alice

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	* Modeling and simulation environments - in order to effectively test our algorithms, we need to develop some good modeling infrastructure that allows different levels of simulations to be combined and integrated in an effective manner. Especially important is the inclusion of sensory-based simulations that can feed representative raw data into low level perceptors based on a simulated environment		* Modeling and simulation environments - in order to effectively test our algorithms, we need to develop some good modeling infrastructure that allows different levels of simulations to be combined and integrated in an effective manner. Especially important is the inclusion of sensory-based simulations that can feed representative raw data into low level perceptors based on a simulated environment

	This project can support 4-6 students who will work together as a team. There are currently 2 students who have expressed interest in the general area of the project.		This project can support 4-6 students who will work together as a team. There are currently 4 students who are working on proposals and an additional 6 have expressed interest in the general area of the project.

	References:		References:

Murray: /* [http://gc.caltech.edu/public/Titan_SURF|Titan SURF projects] */

2008-01-14T16:21:41Z

[http://gc.caltech.edu/public/Titan_SURF|Titan SURF projects]

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	# L. B. Cremean et al., [http://gc.caltech.edu/media/papers/teamcaltech-jfr06.pdf "Alice: An Information-Rich Autonomous Vehicle for High-Speed Desert Navigation"]. ''Journal of Field Robotics'', 2006.		# L. B. Cremean et al., [http://gc.caltech.edu/media/papers/teamcaltech-jfr06.pdf "Alice: An Information-Rich Autonomous Vehicle for High-Speed Desert Navigation"]. ''Journal of Field Robotics'', 2006.

	===== [http://gc.caltech.edu/public/Titan_SURF\|Titan SURF projects] =====		===== [http://gc.caltech.edu/public/Titan_SURF Titan SURF projects] =====
	The Jet Propulsion Laboratory (JPL) is working on a mission to Titan (one of Saturn's moon) that will involve flying a balloon in the atmosphere of the moon to take scientific readings of the ground. This project involves several faculty from Aeronautics, Mechanical Engineering and Control and Dynamical Systems. The projects in my group will focus on evaluating autonomous controls technology that can be used on a prototyped (to be developed as part of CS/EE/ME 75 in 2008-09). More information is available from the link above.		The Jet Propulsion Laboratory (JPL) is working on a mission to Titan (one of Saturn's moon) that will involve flying a balloon in the atmosphere of the moon to take scientific readings of the ground. This project involves several faculty from Aeronautics, Mechanical Engineering and Control and Dynamical Systems. The projects in my group will focus on evaluating autonomous controls technology that can be used on a prototyped (to be developed as part of CS/EE/ME 75 in 2008-09). More information is available from the link above.
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Murray: /* Titan SURF projects */

2008-01-14T16:21:22Z

Titan SURF projects

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	# L. B. Cremean et al., [http://gc.caltech.edu/media/papers/teamcaltech-jfr06.pdf "Alice: An Information-Rich Autonomous Vehicle for High-Speed Desert Navigation"]. ''Journal of Field Robotics'', 2006.		# L. B. Cremean et al., [http://gc.caltech.edu/media/papers/teamcaltech-jfr06.pdf "Alice: An Information-Rich Autonomous Vehicle for High-Speed Desert Navigation"]. ''Journal of Field Robotics'', 2006.

	===== [[gc~~:Titan SURF~~\|Titan SURF projects]] =====		===== [http://gc.caltech.edu/public/Titan_SURF\|Titan SURF projects] =====
	The Jet Propulsion Laboratory (JPL) is working on a mission to Titan (one of Saturn's moon) that will involve flying a balloon in the atmosphere of the moon to take scientific readings of the ground. This project involves several faculty from Aeronautics, Mechanical Engineering and Control and Dynamical Systems. The projects in my group will focus on evaluating autonomous controls technology that can be used on a prototyped (to be developed as part of CS/EE/ME 75 in 2008-09). More information is available from the link above.		The Jet Propulsion Laboratory (JPL) is working on a mission to Titan (one of Saturn's moon) that will involve flying a balloon in the atmosphere of the moon to take scientific readings of the ground. This project involves several faculty from Aeronautics, Mechanical Engineering and Control and Dynamical Systems. The projects in my group will focus on evaluating autonomous controls technology that can be used on a prototyped (to be developed as part of CS/EE/ME 75 in 2008-09). More information is available from the link above.
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Murray: /* Titan */

2008-01-12T21:12:33Z

Titan

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	# L. B. Cremean et al., [http://gc.caltech.edu/media/papers/teamcaltech-jfr06.pdf "Alice: An Information-Rich Autonomous Vehicle for High-Speed Desert Navigation"]. ''Journal of Field Robotics'', 2006.		# L. B. Cremean et al., [http://gc.caltech.edu/media/papers/teamcaltech-jfr06.pdf "Alice: An Information-Rich Autonomous Vehicle for High-Speed Desert Navigation"]. ''Journal of Field Robotics'', 2006.

	===== Titan =====		===== [[gc:Titan SURF\|Titan SURF projects]] =====
	The Jet Propulsion Laboratory (JPL) is working on a mission to Titan (one of Saturn's moon) that will involve flying a balloon in the atmosphere of the moon to take scientific readings of the ground. This project involves several faculty from Aeronautics, Mechanical Engineering and Control and Dynamical Systems. The projects in my group will focus on evaluating autonomous controls technology that can be used on a prototyped (to be developed as part of CS/EE/ME 75 in 2008-09). Specific projects include:		The Jet Propulsion Laboratory (JPL) is working on a mission to Titan (one of Saturn's moon) that will involve flying a balloon in the atmosphere of the moon to take scientific readings of the ground. This project involves several faculty from Aeronautics, Mechanical Engineering and Control and Dynamical Systems. The projects in my group will focus on evaluating autonomous controls technology that can be used on a prototyped (to be developed as part of CS/EE/ME 75 in 2008-09). More information is available from the link above.
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			Specific projects include:
	* Controllability analysis for vehicle configurations - we expect to explore a number of different vehicle configurations (locations of thrusters, mechanisms for controlling orientation, etc). An important evaluation criterion will be the controllability of the configuration: how well can the vehicle maneuver in terms of satisfying the science objectives of the system.		* Controllability analysis for vehicle configurations - we expect to explore a number of different vehicle configurations (locations of thrusters, mechanisms for controlling orientation, etc). An important evaluation criterion will be the controllability of the configuration: how well can the vehicle maneuver in terms of satisfying the science objectives of the system.
	* Receding horizon control using observed/estimated atmospheric currents - the local (100 km scale) atmospheric environment around the vehicle must be used to determine how to achieve mission objectives, but this environment may not be directly measurable. This project will explore the use of receding horizon control techniques for trajectory planning and control in the face of atmospheric uncertainty.		* Receding horizon control using observed/estimated atmospheric currents - the local (100 km scale) atmospheric environment around the vehicle must be used to determine how to achieve mission objectives, but this environment may not be directly measurable. This project will explore the use of receding horizon control techniques for trajectory planning and control in the face of atmospheric uncertainty.
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	References		References
	# [http://start1.jpl.nasa.gov/caseStudies/titan.cfm Case Study: Titan Surface and Subsurface In Situ System]		# [http://start1.jpl.nasa.gov/caseStudies/titan.cfm Case Study: Titan Surface and Subsurface In Situ System]
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	=== Synthetic Biology ===		=== Synthetic Biology ===

Murray: /* [http://announcements.surf.caltech.edu/index.cfm?event=ViewAODetail&id=190 iGEM Competition] */

2008-01-09T01:52:15Z

[http://announcements.surf.caltech.edu/index.cfm?event=ViewAODetail&id=190 iGEM Competition]

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	===== [http://announcements.surf.caltech.edu/index.cfm?event=ViewAODetail&id=190 iGEM Competition] =====		===== [http://announcements.surf.caltech.edu/index.cfm?event=ViewAODetail&id=190 iGEM Competition] =====

			A team of 4-5 undergraduates will be assembled to work on a larger research challenge in Synthetic Biology. The goal of this research team will be to design, construct, and implement a synthetic biological system over the course of the summer. Team members will determine the group's entry, with guidance from a set of faculty and graduate student mentors. The overall research challenge will be broken up into smaller research projects that each team member will work on individually as appropriate. The design process will involve conceptual frameworks for engineering cellular function. The construction and characterization processes will involve significant molecular biology and biochemistry experimental techniques. Interested students should follow the link above for more information.

	=== Additional Information ===		=== Additional Information ===

Murray: /* Biological Circuit Design */

2008-01-09T01:51:14Z

Biological Circuit Design

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	References		References
	# J. Ugander, M. J. Dunlop and R. M. Murray, [ftp://ftp.cds.caltech.edu/pub/murray/preprints/udm07-acc.pdf Analysis of a Digital Clock for Molecular Computing]. American Control Conference, 2007.		# J. Ugander, M. J. Dunlop and R. M. Murray, [ftp://ftp.cds.caltech.edu/pub/murray/preprints/udm07-acc.pdf Analysis of a Digital Clock for Molecular Computing]. American Control Conference, 2007.

			===== [http://announcements.surf.caltech.edu/index.cfm?event=ViewAODetail&id=190 iGEM Competition] =====

	=== Additional Information ===		=== Additional Information ===

Murray: /* Synthetic Biology */

2008-01-09T01:49:11Z

Synthetic Biology

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	# Georg Seelig, David Soloveichik, David Yu Zhang, Erik Winfree, [http://www.sciencemag.org/cgi/content/abstract/314/5805/1585 Enzyme-Free Nucleic Acid Logic Circuits]. Science, 2006.		# Georg Seelig, David Soloveichik, David Yu Zhang, Erik Winfree, [http://www.sciencemag.org/cgi/content/abstract/314/5805/1585 Enzyme-Free Nucleic Acid Logic Circuits]. Science, 2006.

	~~'''~~Biological Circuit Design~~'''~~		===== Biological Circuit Design =====

			Gene expression is often controlled by natural genetic regulatory networks that govern the rates at which genes are transcribed. Recent work has shown that synthetic versions of genetic networks can be designed and built in living cells. Applications for these synthetic regulatory networks include intracellular decision-making and computation. Our goal in working in this area is to design increasingly sophisticated synthetic devices based on engineering principles that can be adapted to the biological world. For instance, we would like to be able to realize a circuit exhibiting a hysteresis behavior, where one can actively
			engineer the hysteresis cycle thresholds, shape and limits guaranteeing robustness with respect to the variability of the
			employed biological parts. Cascade and parallel interconnections of existing circuits to get new function is another possible area for exploration.

			References
			# J. Ugander, M. J. Dunlop and R. M. Murray, [ftp://ftp.cds.caltech.edu/pub/murray/preprints/udm07-acc.pdf Analysis of a Digital Clock for Molecular Computing]. American Control Conference, 2007.

	=== Additional Information ===		=== Additional Information ===

Murray: /* Molecular Programming */

2008-01-09T00:48:12Z

Molecular Programming

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	References:		References:
	# E. Franco, P.-O. Forsberg and R. M. Murray, [ftp://ftp.cds.caltech.edu/pub/murray/preprints/ffm08-acc_s.pdf Design, modeling and synthesis of an in vitro transcription rate regulatory circuit]. Submitted, 2008 American Control Conference.		# E. Franco, P.-O. Forsberg and R. M. Murray, [ftp://ftp.cds.caltech.edu/pub/murray/preprints/ffm08-acc_s.pdf Design, modeling and synthesis of an in vitro transcription rate regulatory circuit]. Submitted, 2008 American Control Conference.
	# Georg Seelig, David Soloveichik, David Yu Zhang, Erik Winfree, http://www.sciencemag.org/cgi/content/abstract/314/5805/1585 Enzyme-Free Nucleic Acid Logic Circuits]. Science, 2006.		# Georg Seelig, David Soloveichik, David Yu Zhang, Erik Winfree, [http://www.sciencemag.org/cgi/content/abstract/314/5805/1585 Enzyme-Free Nucleic Acid Logic Circuits]. Science, 2006.

	'''Biological Circuit Design'''		'''Biological Circuit Design'''

Murray: /* Synthetic Biology */

2008-01-09T00:47:53Z

Synthetic Biology

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	=== Synthetic Biology ===		=== Synthetic Biology ===

	===== Molecular Programming ======		===== Molecular Programming =====
	A molecular program is a collection of molecules that may perform a computation, fabricate an object, or control a system of molecular sensors and actuators. The best examples are the biomolecular programs of life---from the low-level operating system controlling cell metabolism to the high-level code for development, the process by which a single cell becomes an entire organism. Life's biomolecular programs are intrinsically parallel, distributed, asynchronous, error-prone yet amazingly robust processes; this shows that issues central to computer science are intrinsic to molecular programs.		A molecular program is a collection of molecules that may perform a computation, fabricate an object, or control a system of molecular sensors and actuators. The best examples are the biomolecular programs of life---from the low-level operating system controlling cell metabolism to the high-level code for development, the process by which a single cell becomes an entire organism. Life's biomolecular programs are intrinsically parallel, distributed, asynchronous, error-prone yet amazingly robust processes; this shows that issues central to computer science are intrinsic to molecular programs.

Murray: /* Synthetic Biology */

2008-01-09T00:47:42Z

Synthetic Biology

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	=== Synthetic Biology ===		=== Synthetic Biology ===

	~~'''~~Molecular Programming'''		===== Molecular Programming ======
			A molecular program is a collection of molecules that may perform a computation, fabricate an object, or control a system of molecular sensors and actuators. The best examples are the biomolecular programs of life---from the low-level operating system controlling cell metabolism to the high-level code for development, the process by which a single cell becomes an entire organism. Life's biomolecular programs are intrinsically parallel, distributed, asynchronous, error-prone yet amazingly robust processes; this shows that issues central to computer science are intrinsic to molecular programs.

			This project will explore the role of feedback in molecular programs and the design of specific feedback circuits using in vitro biochemistry. Possible project areas include the design of PID (or PI or PD) controllers using biopolyners (DNA and RNA). The projects should involve a combination of modeling, experiments and analysis.

			References:
			# E. Franco, P.-O. Forsberg and R. M. Murray, [ftp://ftp.cds.caltech.edu/pub/murray/preprints/ffm08-acc_s.pdf Design, modeling and synthesis of an in vitro transcription rate regulatory circuit]. Submitted, 2008 American Control Conference.
			# Georg Seelig, David Soloveichik, David Yu Zhang, Erik Winfree, http://www.sciencemag.org/cgi/content/abstract/314/5805/1585 Enzyme-Free Nucleic Acid Logic Circuits]. Science, 2006.

	'''Biological Circuit Design'''		'''Biological Circuit Design'''