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<h1>Project</h1>
<h1>Project</h1>
[[Image:スライド1.JPG|center|600px]]
But on experiment, it is not smart that proceeing our project in order.
Luckily, large number of people in our team(and most of us are fresh!).
So we decided to separate our project into several part and do experiment parallelly.
Our experiment separates three parts; Gate part, Porter part, and Membrane part.


Gate part is the group making the Cell-gate itself.


Porter part is the group making the function to transport the target in the channel.</br>
[[Image:スクリーンショット 2012-10-28 8.27.26.png|center|600px]]


Membrane part is the group making liposome by using lipid.


To separate our project and finally mix, we aim to gain our achievement.
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.
And we also establish simmulation group that verifies each structure theoretically.
{{-}}
{{-}}


<h1>Projct GATE</h1>
<html><h1><a name="GATE">Sub-project GATE</a></h1></html>
[[Image:Gate.png|right|none|400px]]
  <h2>Function</h2>
  <h2>Goal</h2>
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.
In order to work as an injector (or extractor) a PORTER system is planted inside this cylinder (see next section).
Electric repulsions of the negative charge of DNA backbone inhibit NOT desired DNA from coming in the Gate.
{{-}}
 
 
[[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>
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>
<h2>Function</h2>


<h1>Project PORTER</h1>
 
[[Image:Porterget.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>
<h2>Goal</h2>
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.
PORTER is the module for active transporter of the target in the GATE.
 
The first Porter reaches the outside of the electric repulsion of the Gate, and pulls the target DNA inside the Gate by using hybridization energy.
 
Inner Porters that have higher affinity than the first Porter push the target inside the Gate step by step.
{{-}}
[[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>
The goal of this sub-project is to confirm this Porter system is working by electrophoresis
{{-}}
{{-}}






<h1>Project MEMBRANE</h1>
<html><h1><a name="MEMBRANE">Sub-project MEMBRANE</a></h1></html>
<h2>Goal</h2>
<h2>Function</h2>
[[Image:Membranerane.png|right|200px|thumb| reference from "the CELL"]]
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 transporters, the "CELL GATE" should work in membrane. Thus, a implementation module for inserting to membranes was designed.
DNA sequences with a hydrophobic molecule (cholesterol) are attached outside and around GATE.   
DNA with a hydrophobic molecule, cholesterol, hybridized around the GATE.   
We use a liposome (artificial lipid vesicle) as a model for the cell membrane.
We used liposome (artificial lipid vesicle) as a model cell membrane.
 
 
[[Image:スライド3.jpg|center|400px|thumb|Our strategy is making liposome indeed cell's membrane]]
 
{{-}}
{{-}}


 
<h2>Sub-project GOAL</h2>
<h1>Application in future</h1>
The goal of this sub-project is to attach gate structure on liposomes and observe them by fluorescence microscope.
Finally, this project aims to attach to real cell and transport a substance to cell and from cell. Of cause, this channel can be applied to medical use. Also, it can be used for bring some substance which it is difficult to bring back now from cell. In this experiment, we used
{{-}}
liposome as a model of a cell membrane, but if we consider the channel attached liposome as one robot, the robot can use to cleaner robot or medical sprinkling robot.
</div>

Latest revision as of 19:42, 27 October 2012

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<body> <div id="Container"> <!-- Menu --> <ul id="menu"> <li><a href="http://openwetware.org/wiki/Biomod/2012/Tohoku/Team_Sendai ">Home</a></li> <li><a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Idea ">Project</a></li> <li><a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Design">Design</a> </li> <li><a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Simulation">Simulation</a> </li> <li> <a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Experiment ">Experiment</a> </li> <li> <a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Future Application">Future Application</a> </li> <li> <a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Diary">Diary</a> </li> <li> <a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Team ">Team</a> </li> <li> <a href=" http://openwetware.org/wiki/Biomod/2012/Tohoku/Team Sendai/header"></a> </li>

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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.

<html><h1><a name="GATE">Sub-project GATE</a></h1></html>

Function

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).


GATE is the gatekeeper that allows only the target to enter the cell.

Sub-project GOAL

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>

Function


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.



PORTER is in charge of the active transporting of the target into GATE.

Sub-project GOAL

The goal of this sub-project is to confirm this Porter system is working by electrophoresis


<html><h1><a name="MEMBRANE">Sub-project MEMBRANE</a></h1></html>

Function

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. We use a liposome (artificial lipid vesicle) as a model for the cell membrane.


Our strategy is making liposome indeed cell's membrane


Sub-project GOAL

The goal of this sub-project is to attach gate structure on liposomes and observe them by fluorescence microscope.

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