Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Progress/Experimental Results - Revision history

YAE LIM Lee at 19:57, 3 November 2011

2011-11-03T19:57:12Z

←Older revision		Revision as of 19:57, 3 November 2011
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	====Gel Verification====		====Gel Verification====
-	:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel Verification\|Gel Verification]]''	+	:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel Verification\|Gel Verification Results]]''
	All of the essential mechanisms in our system were veriﬁed in solution using		All of the essential mechanisms in our system were veriﬁed in solution using
	polyacrylamide gel electrophoresis.These mechanisms include:		polyacrylamide gel electrophoresis.These mechanisms include:
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	====AFM Verification====		====AFM Verification====
-	:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/AFM_Experiments\|AFM ~~Experiments~~]]''	+	:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/AFM_Experiments\|AFM Experiment Results]]''
	Atomic force microscopy (AFM)was used to verify the random walking mechanism on origami. We imaged individual origami rectangles (using the 1D random walking playground layout) with an inhibited, biotin/streptavidin-tagged walker at its start site, and observed that the walkers begin at their intended start site at one end of the random-walking track. We will then trigger the walker, wait for some amount of time, and image the origami again to verify that walkers have left their start site and are tending to stop at their goal at the other end of the track.		Atomic force microscopy (AFM)was used to verify the random walking mechanism on origami. We imaged individual origami rectangles (using the 1D random walking playground layout) with an inhibited, biotin/streptavidin-tagged walker at its start site, and observed that the walkers begin at their intended start site at one end of the random-walking track. We will then trigger the walker, wait for some amount of time, and image the origami again to verify that walkers have left their start site and are tending to stop at their goal at the other end of the track.

	{{Template:DeoxyriboNucleicAwesomeFooter}}		{{Template:DeoxyriboNucleicAwesomeFooter}}

YAE LIM Lee at 19:56, 3 November 2011

2011-11-03T19:56:36Z

←Older revision		Revision as of 19:56, 3 November 2011
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	====SPEX Verification====		====SPEX Verification====

-	:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Kinetics Results\|~~Kinetics (~~SPEX) Results]]''	+	:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Kinetics Results\|SPEX Results for Kinetics]]''
	All of the essential mechanisms were verified using fluorescent spectroscopy. We also analyzed the kinetics of our mechanisms in solution.		All of the essential mechanisms were verified using fluorescent spectroscopy. We also analyzed the kinetics of our mechanisms in solution.

YAE LIM Lee at 19:51, 3 November 2011

2011-11-03T19:51:17Z

←Older revision	Revision as of 19:51, 3 November 2011
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-	+	__TOC__

YAE LIM Lee at 19:50, 3 November 2011

2011-11-03T19:50:48Z

←Older revision		Revision as of 19:50, 3 November 2011
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	==Verification of Overall Mechanisms in Solution==		==Verification of Overall Mechanisms in Solution==

-	===Gel Verification===	+	====Gel Verification====
	:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel Verification\|Gel Verification]]''		:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel Verification\|Gel Verification]]''
	All of the essential mechanisms in our system were veriﬁed in solution using		All of the essential mechanisms in our system were veriﬁed in solution using
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	[[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel_Verification#Gel_7\|irreversibly walking from tracks to the walker goal]].		[[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel_Verification#Gel_7\|irreversibly walking from tracks to the walker goal]].

-	===SPEX Verification===	+	====SPEX Verification====

	:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Kinetics Results\|Kinetics (SPEX) Results]]''		:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Kinetics Results\|Kinetics (SPEX) Results]]''
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	==Demonstration of Random Walking Robot on Origami==		==Demonstration of Random Walking Robot on Origami==

-	===SPEX Verification===	+	====SPEX Verification====
	:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/SPEX Results\|SPEX Results for Random Walking]]''		:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/SPEX Results\|SPEX Results for Random Walking]]''
	Random walking robot on origami was successfully demonstrated by fluorescent spectroscopy (SPEX). The results show that walking completion time dependent on the track length, and the random walking curve fits well with the theoretical equation. Goals were tagged with fluorophores whereas walkers were tagged with the corresponding quenchers. Fluorescent signals will decrease when walkers reach their goals. Unlike AFM, which studied individual origami, SPEX experiments studied the collective behavior of all the origami in solution. Hence, the SPEX results were analyzed using both Matlab simulation and mathematical formulae.		Random walking robot on origami was successfully demonstrated by fluorescent spectroscopy (SPEX). The results show that walking completion time dependent on the track length, and the random walking curve fits well with the theoretical equation. Goals were tagged with fluorophores whereas walkers were tagged with the corresponding quenchers. Fluorescent signals will decrease when walkers reach their goals. Unlike AFM, which studied individual origami, SPEX experiments studied the collective behavior of all the origami in solution. Hence, the SPEX results were analyzed using both Matlab simulation and mathematical formulae.

-	===AFM Verification===	+	====AFM Verification====
	:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/AFM_Experiments\|AFM Experiments]]''		:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/AFM_Experiments\|AFM Experiments]]''
	Atomic force microscopy (AFM)was used to verify the random walking mechanism on origami. We imaged individual origami rectangles (using the 1D random walking playground layout) with an inhibited, biotin/streptavidin-tagged walker at its start site, and observed that the walkers begin at their intended start site at one end of the random-walking track. We will then trigger the walker, wait for some amount of time, and image the origami again to verify that walkers have left their start site and are tending to stop at their goal at the other end of the track.		Atomic force microscopy (AFM)was used to verify the random walking mechanism on origami. We imaged individual origami rectangles (using the 1D random walking playground layout) with an inhibited, biotin/streptavidin-tagged walker at its start site, and observed that the walkers begin at their intended start site at one end of the random-walking track. We will then trigger the walker, wait for some amount of time, and image the origami again to verify that walkers have left their start site and are tending to stop at their goal at the other end of the track.

	{{Template:DeoxyriboNucleicAwesomeFooter}}		{{Template:DeoxyriboNucleicAwesomeFooter}}

YAE LIM Lee at 13:12, 3 November 2011

2011-11-03T13:12:59Z

←Older revision		Revision as of 13:12, 3 November 2011
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	[[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel_Verification#Gel_6\|dropping oﬀ cargo]], and		[[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel_Verification#Gel_6\|dropping oﬀ cargo]], and
	[[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel_Verification#Gel_7\|irreversibly walking from tracks to the walker goal]].		[[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel_Verification#Gel_7\|irreversibly walking from tracks to the walker goal]].
-	~~We are fairly confident that all of these mechanisms work as expected in solution, with a few mysteries that do not seem to~~
-	~~interfere with the overall behavior of the system (see [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel Verification\|Gel Verification]]).~~

	===SPEX Verification===		===SPEX Verification===

YAE LIM Lee at 13:03, 3 November 2011

2011-11-03T13:03:40Z

←Older revision		Revision as of 13:03, 3 November 2011
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	===Gel Verification===		===Gel Verification===
	:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel Verification\|Gel Verification]]''		:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel Verification\|Gel Verification]]''
-	~~=====~~All of the essential mechanisms in our system were veriﬁed in solution using	+	All of the essential mechanisms in our system were veriﬁed in solution using
-	polyacrylamide gel electrophoresis.~~=====~~ These mechanisms include:	+	polyacrylamide gel electrophoresis.These mechanisms include:
	[[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel_Verification#Gel_1\|walker-track binding]],		[[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel_Verification#Gel_1\|walker-track binding]],
	[[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel_Verification#Gel_2\|triggering the walker]],		[[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel_Verification#Gel_2\|triggering the walker]],
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	:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Kinetics Results\|Kinetics (SPEX) Results]]''		:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Kinetics Results\|Kinetics (SPEX) Results]]''
-	~~We used~~ fluorescent spectroscopy ~~(SPEX) to study~~ the kinetics of our mechanisms in solution.	+	All of the essential mechanisms were verified using fluorescent spectroscopy. We also analyzed the kinetics of our mechanisms in solution.


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	===SPEX Verification===		===SPEX Verification===
	:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/SPEX Results\|SPEX Results for Random Walking]]''		:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/SPEX Results\|SPEX Results for Random Walking]]''
-	~~We used~~ fluorescent spectroscopy (SPEX) ~~to verify~~ the random walking ~~mechanism on~~ the ~~origami~~. Goals were tagged with fluorophores whereas walkers were tagged with the corresponding quenchers. Fluorescent signals will decrease when walkers reach their goals. Unlike AFM, which studied individual origami, SPEX experiments studied the collective behavior of all the origami in solution. Hence, the SPEX results were analyzed using both Matlab simulation and mathematical formulae.	+	Random walking robot on origami was successfully demonstrated by fluorescent spectroscopy (SPEX). The results show that walking completion time dependent on the track length, and the random walking curve fits well with the theoretical equation. Goals were tagged with fluorophores whereas walkers were tagged with the corresponding quenchers. Fluorescent signals will decrease when walkers reach their goals. Unlike AFM, which studied individual origami, SPEX experiments studied the collective behavior of all the origami in solution. Hence, the SPEX results were analyzed using both Matlab simulation and mathematical formulae.

	===AFM Verification===		===AFM Verification===
	:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/AFM_Experiments\|AFM Experiments]]''		:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/AFM_Experiments\|AFM Experiments]]''
-	~~We are in the process of using atomic~~ force microscopy (AFM) to verify the random walking mechanism on origami. We ~~plan to image~~ individual origami rectangles (using the 1D random walking playground layout) with an inhibited, biotin/streptavidin-tagged walker at its start site, and ~~verify~~ that walkers begin at their intended start site at one end of the random-walking track. We will then trigger the walker, wait for some amount of time, and image the origami again to verify that walkers have left their start site and are tending to stop at their goal at the other end of the track~~. This research is still in progress~~.	+	Atomic force microscopy (AFM)was used to verify the random walking mechanism on origami. We imaged individual origami rectangles (using the 1D random walking playground layout) with an inhibited, biotin/streptavidin-tagged walker at its start site, and observed that the walkers begin at their intended start site at one end of the random-walking track. We will then trigger the walker, wait for some amount of time, and image the origami again to verify that walkers have left their start site and are tending to stop at their goal at the other end of the track.

	{{Template:DeoxyriboNucleicAwesomeFooter}}		{{Template:DeoxyriboNucleicAwesomeFooter}}

YAE LIM Lee at 12:58, 3 November 2011

2011-11-03T12:58:59Z

←Older revision		Revision as of 12:58, 3 November 2011
Line 11:		Line 11:
	===Gel Verification===		===Gel Verification===
	:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel Verification\|Gel Verification]]''		:''Main article: [[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel Verification\|Gel Verification]]''
-	All of the essential mechanisms in our system were veriﬁed in solution using	+	=====All of the essential mechanisms in our system were veriﬁed in solution using
-	polyacrylamide gel electrophoresis. These mechanisms include:	+	polyacrylamide gel electrophoresis.===== These mechanisms include:
	[[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel_Verification#Gel_1\|walker-track binding]],		[[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel_Verification#Gel_1\|walker-track binding]],
	[[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel_Verification#Gel_2\|triggering the walker]],		[[Biomod/2011/Caltech/DeoxyriboNucleicAwesome/Gel_Verification#Gel_2\|triggering the walker]],

YAE LIM Lee: /* Verification of Random Walking Mechanism on Origami */

2011-11-03T12:30:54Z

Verification of Random Walking Mechanism on Origami

←Older revision		Revision as of 12:30, 3 November 2011
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-	==~~Verification~~ of Random Walking ~~Mechanism~~ on Origami==	+	==Demonstration of Random Walking Robot on Origami==

	===SPEX Verification===		===SPEX Verification===

YAE LIM Lee at 07:54, 3 November 2011

2011-11-03T07:54:02Z

←Older revision		Revision as of 07:54, 3 November 2011
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	= Progress 3: Experimental Results =		= Progress 3: Experimental Results =
		+

YAE LIM Lee at 07:53, 3 November 2011

2011-11-03T07:53:50Z

←Older revision		Revision as of 07:53, 3 November 2011
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	= Progress 3: Experimental Results =		= Progress 3: Experimental Results =
		+
		+
		+

	==Verification of Overall Mechanisms in Solution==		==Verification of Overall Mechanisms in Solution==