Biomod/2012/TeamSendai/Idea - Revision history

Kazuki Hirahara at 02:42, 28 October 2012

Kazuki Hirahara — Sun, 28 Oct 2012 02:42:21 GMT

←Older revision		Revision as of 02:42, 28 October 2012
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		+	<html>
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		+	<head><style>#column-one { display:none; width:0px;}
		+	.container{background-color: #f5f5f5; margin-top:50px}
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		+	#content{border:none;margin: 0 0 0 0; padding: 1em 1em 1em 1em; position: center; width: 800px;background-color: #f0f0f0; }
		+	.container{ width:1280px; margin: auto; background-color: #f0f0f0; text-align:justify; font-family: helvetica, arial, sans-serif; color:#f0f0f0; margin-top:25px; }
		+	#bodyContent{ width: 1267px; align: center; background-color: #f0f0f0;}
		+	#column-content{width: 1280px;background-color: #f0f0f0;}
		+	.firstHeading { display:none;width:0px;background-color: #f0f0f0;}
		+	#header{position: center; width: 800px;background-color: #f0f0f0;}
		+	#footer{position: center; width:1280px;}
		+	</style><header>
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		+	</html>
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	{{:Biomod/2012/Tohoku/Team_Sendai/header}}		{{:Biomod/2012/Tohoku/Team_Sendai/header}}
	__NOTOC__		__NOTOC__

Kazuki Hirahara at 23:28, 27 October 2012

Kazuki Hirahara — Sat, 27 Oct 2012 23:28:39 GMT

←Older revision		Revision as of 23:28, 27 October 2012
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-	[[Image:スクリーンショット 2012-10-28 5.35.45.png\|center\|600px]]	+	[[Image:スクリーンショット 2012-10-28 8.27.26.png\|center\|600px]]

Kazuki Hirahara at 20:55, 27 October 2012

Kazuki Hirahara — Sat, 27 Oct 2012 20:55:46 GMT

←Older revision		Revision as of 20:55, 27 October 2012
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-	[[Image:イラストその１.png\|center\|700px]]	+	[[Image:イラストその１.png\|center\|700px\|thumb\|GATE is the gatekeeper that allows only the target to enter the cell.]]
		+
	<h2>Sub-project GOAL</h2>		<h2>Sub-project GOAL</h2>
	The goal of this sub-project is to prove this structure is self-assembled by electrophoresis and AFM		The goal of this sub-project is to prove this structure is self-assembled by electrophoresis and AFM
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	{{-}}		{{-}}
-	[[Image:イラストporter.png\|center\|700px]]	+	[[Image:イラストporter.png\|center\|700px\|thumb\|PORTER is in charge of the active transporting of the target into GATE.]]
		+
	<h2>Sub-project GOAL</h2>		<h2>Sub-project GOAL</h2>
	The goal of this sub-project is to confirm this Porter system is working by electrophoresis		The goal of this sub-project is to confirm this Porter system is working by electrophoresis

Kazuki Hirahara at 20:37, 27 October 2012

Kazuki Hirahara — Sat, 27 Oct 2012 20:37:20 GMT

←Older revision		Revision as of 20:37, 27 October 2012
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-	[[Image:スクリーンショット 2012-10-28 3.46.27.png\|center\|600px]]	+	[[Image:スクリーンショット 2012-10-28 5.35.45.png\|center\|600px]]

Kazuki Hirahara at 18:48, 27 October 2012

Kazuki Hirahara — Sat, 27 Oct 2012 18:48:24 GMT

←Older revision		Revision as of 18:48, 27 October 2012
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-	[[Image:スクリーンショット 2012-10-28 3.33.43.png\|center\|600px]]	+	[[Image:スクリーンショット 2012-10-28 3.46.27.png\|center\|600px]]

Kazuki Hirahara at 18:37, 27 October 2012

Kazuki Hirahara — Sat, 27 Oct 2012 18:37:17 GMT

←Older revision		Revision as of 18:37, 27 October 2012
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	<div id="Container">		<div id="Container">
	<h1>Project</h1>		<h1>Project</h1>
-	[[Image:~~Imashun4~~.png\|center\|600px]]	+
		+
		+	[[Image:スクリーンショット 2012-10-28 3.33.43.png\|center\|600px]]
		+
		+
	We decided to divide our project into several subprojects to do experiments in parallel. The sub-projects are GATE, PORTER, and MEMBRANE projects. We also have SIMULATION project to evaluate design of each sub-project.		We decided to divide our project into several subprojects to do experiments in parallel. The sub-projects are GATE, PORTER, and MEMBRANE projects. We also have SIMULATION project to evaluate design of each sub-project.
	{{-}}		{{-}}

Kazuki Hirahara at 18:31, 27 October 2012

Kazuki Hirahara — Sat, 27 Oct 2012 18:31:06 GMT

←Older revision		Revision as of 18:31, 27 October 2012
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	<html><h1><a name="GATE">Sub-project GATE</a></h1></html>		<html><h1><a name="GATE">Sub-project GATE</a></h1></html>
	<h2>Function</h2>		<h2>Function</h2>
-	~~[[Image:Gate.png\|right\|none\|400px]]~~
	GATE is the gatekeeper that allows only the target to enter the cell. Actually, is cylindrical DNA nanostructure connecting the inside and outside of membrane like a channel. Because GATE is made of DNA origami, electric repulsions caused by the negative charge of the DNA backbone prevent not desired DNA from entering GATE.		GATE is the gatekeeper that allows only the target to enter the cell. Actually, is cylindrical DNA nanostructure connecting the inside and outside of membrane like a channel. Because GATE is made of DNA origami, electric repulsions caused by the negative charge of the DNA backbone prevent not desired DNA from entering GATE.
	In order to work as an injector (or extractor) a PORTER system is planted inside this cylinder (see next section).		In order to work as an injector (or extractor) a PORTER system is planted inside this cylinder (see next section).
	{{-}}		{{-}}

		+
		+	[[Image:イラストその１.png\|center\|700px]]
	<h2>Sub-project GOAL</h2>		<h2>Sub-project GOAL</h2>
	The goal of this sub-project is to prove this structure is self-assembled by electrophoresis and AFM		The goal of this sub-project is to prove this structure is self-assembled by electrophoresis and AFM
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	<html><h1><a name="PORTER">Sub-project PORTER</a></h1></html>		<html><h1><a name="PORTER">Sub-project PORTER</a></h1></html>
	<h2>Function</h2>		<h2>Function</h2>
-	~~[[Image:Porter-picture.png\|right\|none\|400px]]~~	+
		+
	PORTER is in charge of the active transporting of the target into GATE. It is composed of single stranded DNA (ssDNA) sequences. Each ssDNA sequence is called Porter. These Porters are designed to transfer target DNA strands into (or out from) the membrane. <html></br></html>		PORTER is in charge of the active transporting of the target into GATE. It is composed of single stranded DNA (ssDNA) sequences. Each ssDNA sequence is called Porter. These Porters are designed to transfer target DNA strands into (or out from) the membrane. <html></br></html>
	The first Porter is likely to be outside GATE because of its electric repulsion. Furthermore, the first Porter catches the target DNA and pull it inside the GATE by hybridizing with it. Inner Porters that have higher affinity than the previous Porter pull the target inside GATE step by step.		The first Porter is likely to be outside GATE because of its electric repulsion. Furthermore, the first Porter catches the target DNA and pull it inside the GATE by hybridizing with it. Inner Porters that have higher affinity than the previous Porter pull the target inside GATE step by step.
-	~~{{-}}~~

		+
		+	{{-}}
		+	[[Image:イラストporter.png\|center\|700px]]
	<h2>Sub-project GOAL</h2>		<h2>Sub-project GOAL</h2>
	The goal of this sub-project is to confirm this Porter system is working by electrophoresis		The goal of this sub-project is to confirm this Porter system is working by electrophoresis
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	<html><h1><a name="MEMBRANE">Sub-project MEMBRANE</a></h1></html>		<html><h1><a name="MEMBRANE">Sub-project MEMBRANE</a></h1></html>
	<h2>Function</h2>		<h2>Function</h2>
-	~~[[Image:Membranerane.png\|right\|200px\|thumb\| Picture from "Molecular biology of the CELL" (Bruce Alberts et al.)]]~~
	As active transporter, "CELL-GATE" should work in a cell membrane. Thus, a implementation module for inserting it to membranes needs to be designed.		As active transporter, "CELL-GATE" should work in a cell membrane. Thus, a implementation module for inserting it to membranes needs to be designed.
	DNA sequences with a hydrophobic molecule (cholesterol) are attached outside and around GATE.		DNA sequences with a hydrophobic molecule (cholesterol) are attached outside and around GATE.
	We use a liposome (artificial lipid vesicle) as a model for the cell membrane.		We use a liposome (artificial lipid vesicle) as a model for the cell membrane.
		+
		+
		+	[[Image:スライド3.jpg\|center\|400px\|thumb\|Our strategy is making liposome indeed cell's membrane]]
		+
	{{-}}		{{-}}

Kazuki Hirahara at 16:52, 27 October 2012

Kazuki Hirahara — Sat, 27 Oct 2012 16:52:01 GMT

←Older revision		Revision as of 16:52, 27 October 2012
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	{{:Biomod/2012/Tohoku/Team_Sendai/header}}		{{:Biomod/2012/Tohoku/Team_Sendai/header}}
-		+	__NOTOC__
	<html>		<html>
	<body>		<body>
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	<html><h1><a name="GATE">Sub-project GATE</a></h1></html>		<html><h1><a name="GATE">Sub-project GATE</a></h1></html>
-	[[Image:Gate.png\|right\|none\|400px]]	+	<h2>Function</h2>
-	~~<h2>Function</h2>~~	+	[[Image:Gate.png\|right\|none\|400px]]
	GATE is the gatekeeper that allows only the target to enter the cell. Actually, is cylindrical DNA nanostructure connecting the inside and outside of membrane like a channel. Because GATE is made of DNA origami, electric repulsions caused by the negative charge of the DNA backbone prevent not desired DNA from entering GATE.		GATE is the gatekeeper that allows only the target to enter the cell. Actually, is cylindrical DNA nanostructure connecting the inside and outside of membrane like a channel. Because GATE is made of DNA origami, electric repulsions caused by the negative charge of the DNA backbone prevent not desired DNA from entering GATE.
-	In order to work as an injector (or extractor) a PORTER system is planted inside this cylinder (see next section).	+	In order to work as an injector (or extractor) a PORTER system is planted inside this cylinder (see next section).
		+	{{-}}

	<h2>Sub-project GOAL</h2>		<h2>Sub-project GOAL</h2>
	The goal of this sub-project is to prove this structure is self-assembled by electrophoresis and AFM		The goal of this sub-project is to prove this structure is self-assembled by electrophoresis and AFM
-
	{{-}}		{{-}}

	<html><h1><a name="PORTER">Sub-project PORTER</a></h1></html>		<html><h1><a name="PORTER">Sub-project PORTER</a></h1></html>
		+	<h2>Function</h2>
	[[Image:Porter-picture.png\|right\|none\|400px]]		[[Image:Porter-picture.png\|right\|none\|400px]]
-	~~<h2>Function</h2>~~
	PORTER is in charge of the active transporting of the target into GATE. It is composed of single stranded DNA (ssDNA) sequences. Each ssDNA sequence is called Porter. These Porters are designed to transfer target DNA strands into (or out from) the membrane. <html></br></html>		PORTER is in charge of the active transporting of the target into GATE. It is composed of single stranded DNA (ssDNA) sequences. Each ssDNA sequence is called Porter. These Porters are designed to transfer target DNA strands into (or out from) the membrane. <html></br></html>
	The first Porter is likely to be outside GATE because of its electric repulsion. Furthermore, the first Porter catches the target DNA and pull it inside the GATE by hybridizing with it. Inner Porters that have higher affinity than the previous Porter pull the target inside GATE step by step.		The first Porter is likely to be outside GATE because of its electric repulsion. Furthermore, the first Porter catches the target DNA and pull it inside the GATE by hybridizing with it. Inner Porters that have higher affinity than the previous Porter pull the target inside GATE step by step.
		+	{{-}}

	<h2>Sub-project GOAL</h2>		<h2>Sub-project GOAL</h2>
Line 39:		Line 40:
	DNA sequences with a hydrophobic molecule (cholesterol) are attached outside and around GATE.		DNA sequences with a hydrophobic molecule (cholesterol) are attached outside and around GATE.
	We use a liposome (artificial lipid vesicle) as a model for the cell membrane.		We use a liposome (artificial lipid vesicle) as a model for the cell membrane.
		+	{{-}}

	<h2>Sub-project GOAL</h2>		<h2>Sub-project GOAL</h2>
	The goal of this sub-project is to attach gate structure on liposomes and observe them by fluorescence microscope.		The goal of this sub-project is to attach gate structure on liposomes and observe them by fluorescence microscope.
	{{-}}		{{-}}

Keitel Cervantes Salguero at 16:30, 27 October 2012

Keitel Cervantes Salguero — Sat, 27 Oct 2012 16:30:18 GMT

←Older revision		Revision as of 16:30, 27 October 2012
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	<html><h1><a name="MEMBRANE">Sub-project MEMBRANE</a></h1></html>		<html><h1><a name="MEMBRANE">Sub-project MEMBRANE</a></h1></html>
-	<h2>~~Goal~~</h2>	+	<h2>Function</h2>
	[[Image:Membranerane.png\|right\|200px\|thumb\| Picture from "Molecular biology of the CELL" (Bruce Alberts et al.)]]		[[Image:Membranerane.png\|right\|200px\|thumb\| Picture from "Molecular biology of the CELL" (Bruce Alberts et al.)]]
	As active transporter, "CELL-GATE" should work in a cell membrane. Thus, a implementation module for inserting it to membranes needs to be designed.		As active transporter, "CELL-GATE" should work in a cell membrane. Thus, a implementation module for inserting it to membranes needs to be designed.

Keitel Cervantes Salguero at 16:12, 27 October 2012

Keitel Cervantes Salguero — Sat, 27 Oct 2012 16:12:49 GMT

←Older revision		Revision as of 16:12, 27 October 2012
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	[[Image:Porter-picture.png\|right\|none\|400px]]		[[Image:Porter-picture.png\|right\|none\|400px]]
	<h2>Function</h2>		<h2>Function</h2>
-	PORTER is in charge of the active transporting of the target into GATE. It is composed of single stranded DNA (ssDNA) sequences. Each ssDNA sequence is called Porter. These Porters are designed to transfer target DNA strands into (or out from) the membrane. </br>	+	PORTER is in charge of the active transporting of the target into GATE. It is composed of single stranded DNA (ssDNA) sequences. Each ssDNA sequence is called Porter. These Porters are designed to transfer target DNA strands into (or out from) the membrane. <html></br></html>
	The first Porter is likely to be outside GATE because of its electric repulsion. Furthermore, the first Porter catches the target DNA and pull it inside the GATE by hybridizing with it. Inner Porters that have higher affinity than the previous Porter pull the target inside GATE step by step.		The first Porter is likely to be outside GATE because of its electric repulsion. Furthermore, the first Porter catches the target DNA and pull it inside the GATE by hybridizing with it. Inner Porters that have higher affinity than the previous Porter pull the target inside GATE step by step.