Biomod/2012/Tohoku/Team Sendai

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<!—二段組み本文 -->
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<div id="Header">
<div id="Header">
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<h1 style="margin-top:-50px;"><!--Team Sendai--><img src="http://openwetware.org/images/c/c2/Title-kai.png" ></h1>
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<h1 align="center";><!--Team Sendai--><img src="http://openwetware.org/images/c/c2/Title-kai.png" ></h1>
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<p>Tohoku University</p>
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</div>
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<!-- Menu -->
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<h1>Abstract</h1>
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<ul id="menu">
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<p>
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<li><a href="http://openwetware.org/wiki/Biomod/2012/Tohoku/Team_Sendai ">Top</a></li>
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All the creatures on Earth are made of cells. The exterior and the interior of the cell are compartmentalized by biomembranes.</br>
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<li><a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Idea ">Project</a></li>
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A nanodevice that is able to actively transport only the specific oligonucleotide through the biomembrane has a great potential to deliver siRNA into the cell or to extract mRNA expressed in the cell.</br>
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<li><a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Simulation">Simulation</a>
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Here, we decided to create a novel device with such a function. </br>
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</li>
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We have designed <strong>a cylindrical injector/extractor device made of DNA origami</strong> (we named this device: <strong>CELL-GATE</strong>). Inside the cylinder, a cascade of single stranded DNAs is planted. Once the outer-most ssDNA binds to a target oligonucleotide, the target is passed to the inner-ones one by one because of the higher bonding energy assigned to the inner ones.</br>
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<li><a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Design">Design</a>
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We also investigate how the cylinder penetrates the biomembrane by using liposome as a model membrane.</br>
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</li>
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</p>
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<li>
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<a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Experiment ">Experiment</a>
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<ul>
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<li><a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Method">Method</a>
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<ul>
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<li>
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<a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Result#Porter">Porter</a>
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<li>
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<a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Result#Cylinder">Cylinder</a> </li>
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<li> <a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Result# Vesicle">Vesicle</a>
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</li>
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</ul>
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</li>
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<li>
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<a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Result">Result</a>
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<ul>
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<a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Result#Porter">Porter</a>
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<li>
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<a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Result#Cylinder">Cylinder</a> </li>
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<li> <a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Result# Vesicle">Vesicle</a>
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</li>
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</ul>
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</li>
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</ul>
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</li>
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<li>
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<a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Achievement">Achievement</a>
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</li>
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<li>
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<a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Diary">Diary</a>
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</li>
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<li>
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<a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/Team ">Team</a>
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</li>
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<li>
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<a href=" http://openwetware.org/wiki/Biomod/2012/TeamSendai/FAQ">FAQ</a>
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</li>
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</ul>
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<!—二段組み本文 -->
 
<div id="pop">
<div id="pop">
<h2><!--Abstract-->Project Image</h2>
<h2><!--Abstract-->Project Image</h2>
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<img src="http://openwetware.org/images/4/46/Format_D-Heart.jpg" alt="D-Heart" width="400px"><br>
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<p>
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<strong>Our PROJECT CELL-GATE is divided into three sub-projects:</strong><br>
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<a href="http://openwetware.org/wiki/Biomod/2012/TeamSendai/Idea#PORTER">PORTER</a>: Composed of single stranded DNA (ssDNA) sequences. Each ssDNA is called  Porter. Porters are designed to transfer target DNA strands into (or out from) the membrane.</br>
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<a href="http://openwetware.org/wiki/Biomod/2012/TeamSendai/Idea#GATE">GATE</a>: Cylindrical DNA nanostructure connecting the inside and outside of membrane like a channel. A cascade of the Porters is planted inside this cylinder. We can use this Gate as an injector or an extractor.</br>
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<a href="http://openwetware.org/wiki/Biomod/2012/TeamSendai/Idea#MEMBRANE">MEMBRANE</a>: The exterior and the interior of the cell are compartmentalized by biomembranes. We use liposome as a model membrane.
 +
</p>
 +
 
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<img src="http://openwetware.org/images/c/c5/Projectcellgate.png" alt="D-Heart" width="440px" usemap="#D-Heart">
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<map name="D-Heart">
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<area shape="rect" coords="310,8,390,45" href="http://openwetware.org/wiki/Biomod/2012/TeamSendai/Idea#PORTER" alt="Porter">
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<area shape="rect" coords="310,95,370,132" href="http://openwetware.org/wiki/Biomod/2012/TeamSendai/Idea#GATE" alt="Gate">
 +
<area shape="rect" coords="33,213,165,245" href="http://openwetware.org/wiki/Biomod/2012/TeamSendai/Idea#MEMBRANE" alt="Membarane">
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</map>
 +
Please CLICK ITEMS, GATE, PORTER, AND MEMBRANE in the picture!
</div>
</div>
 +
<div id="pop">
<div id="pop">
<h2>Movie</h2>
<h2>Movie</h2>
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<!--
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<p>
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<p>Coming soon</p>
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</br>
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-->
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<iframe width="420" height="315" src="http://www.youtube.com/embed/8OB8ytltxwY" frameborder="0" allowfullscreen></iframe>
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<br><br>
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<p style="text-align:center;">
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<table style="border-style:solid;border-width:10px;width:400px;height:291px;background-color:black;border-color:#bbb;text-align:center;valign:middle;font-color:white;">
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<td style="color:white;">Coming soon...</td>
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</p>
</p>
</div>
</div>
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<h1 style="width:900px;clear:left;margin:15px;">
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<br clear = "left">
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Abstract</h1>
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<p style="width:900px;clear:left;margin:15px;">
+
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&nbsp;All the creatures on Earth are made of cells. The exterior and the interior of the cell are compartmentalized by biomembranes.
+
-
A nanodevice that is able to actively transport only the specific oligonucleotide through the biomembrane has a great potential to deliver siRNA into the cell or to extract mRNA expressed in the cell.<br>
+
-
Here, we decided to create a novel device with such a function. <br>
+
-
We have designed a cylindrical injector/extractor device made of DNA origami. Inside the cylinder, a cascade of single stranded DNAs is planted. Once the outer-most ssDNA binds to a target oligonucleotide,　the target is passed to the inner-ones one by one because of the higher bonding energy assigned to the inner ones.<br>
+
-
We also investigate how the cylinder penetrates the biomembrane by using liposome as a model membrane.<br>
+
-
<br>
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<strong>Selector</strong>: Single stranded DNA. Once the outer-most ssDNA binds to a target,　the target is passed to the inner-ones one by one.</br>
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<strong>Gate</strong>: Cylindrical structure connecting the inside and outside like gates. A cascade of the "Selector" is planted in this. We can use this as an injector or extractor.</br>
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<strong>Membrane</strong>: The exterior and the interior of the cell are compartmentalized by biomembranes. We use liposome as a model membrane.</br>
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</p>
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-
 
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<h1 style="width:900px;clear:left;margin:15px;">
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Our goal</h1>
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<p>
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僕たちはＤＮＡでチャネルを作りたい。天然には存在しない完ぺきな人工チャネルを作りたい！</br>
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もしこれが出来ると・・・</br>
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・実際に存在するチャネルでは運べなかったけれど細胞内に運びたいものを運ぶことが出来る！→医療にも応用できるかも</br>
+
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・細胞内から欲しい物質を捕ってくることが出来る！</br>
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・自分たちで作ったリポソームまで含めることで体内でいらない物質を取り込みきれいにするお掃除ロボットにもなる！（もちろん薬をまく噴霧ロボットにも）</br>
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だから僕たちはＤＮＡロボットを作るんだ！！</br>
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-
 
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</p>
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<p>
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-
We want to create a channel working in a new way that does not exist in nature. The channel uses DNA characteristic. DNA is a designable molecule and has interaction with various biomolecules. So if we create a new channel made of DNA, we transport more various biomolecules and create intentionally energy gradient.</br>
+
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This new channel will be used…</br>
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1. In medical care, because it can transport new molecules that are unable to be transported into cells without DNA.</br>
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2. For sampling what we want from cells.</br>
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3. For cleaning or DDS by compositing with artificial liposome.</br>
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（図が必要）
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</p>
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<a href=" http://openwetware.org/wiki/Biomod/2012/Team_Sendai_Old">Test page</a>
 
</div>
</div>

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Team Sendai Top

Abstract

All the creatures on Earth are made of cells. The exterior and the interior of the cell are compartmentalized by biomembranes.
A nanodevice that is able to actively transport only the specific oligonucleotide through the biomembrane has a great potential to deliver siRNA into the cell or to extract mRNA expressed in the cell.
Here, we decided to create a novel device with such a function.
We have designed a cylindrical injector/extractor device made of DNA origami (we named this device: CELL-GATE). Inside the cylinder, a cascade of single stranded DNAs is planted. Once the outer-most ssDNA binds to a target oligonucleotide, the target is passed to the inner-ones one by one because of the higher bonding energy assigned to the inner ones.
We also investigate how the cylinder penetrates the biomembrane by using liposome as a model membrane.

Project Image

Our PROJECT CELL-GATE is divided into three sub-projects:
PORTER: Composed of single stranded DNA (ssDNA) sequences. Each ssDNA is called Porter. Porters are designed to transfer target DNA strands into (or out from) the membrane.
GATE: Cylindrical DNA nanostructure connecting the inside and outside of membrane like a channel. A cascade of the Porters is planted inside this cylinder. We can use this Gate as an injector or an extractor.
MEMBRANE: The exterior and the interior of the cell are compartmentalized by biomembranes. We use liposome as a model membrane.

D-Heart Porter Gate Membarane Please CLICK ITEMS, GATE, PORTER, AND MEMBRANE in the picture!

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