Biomod/2012/UTokyo/UT-Komaba: Difference between revisions
Yuito Murase (talk | contribs) |
Yuito Murase (talk | contribs) No edit summary |
||
| (19 intermediate revisions by 4 users not shown) | |||
| Line 3: | Line 3: | ||
<style type="text/css"> | <style type="text/css"> | ||
<!-- | <!-- | ||
#column-one {display:none; width:0px;} | #column-one {display:none; width:0px;} | ||
#column-content {margin: 0;} | |||
.container{background-color: #ffffff; margin-top:0px} | .container{background-color: #ffffff; margin-top:0px} | ||
.OWWNBcpCurrentDateFilled {display: none;} | .OWWNBcpCurrentDateFilled {display: none;} | ||
#globalWrapper{margin:0; padding: 0;} | #globalWrapper{margin: 0 auto; padding: 0; width: 900px;} | ||
.firstHeading {display:none; width:0px;} | .firstHeading {display:none; width:0px;} | ||
#content {margin-left: 0; padding | #content {margin-left: 0; padding: 0; border: none;} | ||
#sidebar-main {display:none; width:0px;} | #sidebar-main {display:none; width:0px;} | ||
#footer{position: center;} | #footer{position: center; margin: 0;} | ||
body { | body { | ||
margin: 0; | margin: 0; | ||
font-family: Calibri, Verdana, helvetica, sans-serif; | |||
background: url(http://openwetware.org/images/2/21/Biomod-2012-ut-komaba-Metal-texture.jpg) darkgray repeat-y; | |||
} | } | ||
#content { | #content { | ||
margin: 0; | |||
} | } | ||
/*title*/ | /*title*/ | ||
| Line 102: | Line 102: | ||
text-align: center; | text-align: center; | ||
} | } | ||
table.tdleft td{ | |||
text-align: left; | |||
} | |||
h1,h2,h3,h4 { | h1,h2,h3,h4 { | ||
| Line 148: | Line 153: | ||
== | ==Video== | ||
<html> | <html> | ||
<iframe width="420" height="315" style="margin: | <iframe width="420" height="315" style="margin-left: 190px; margin-right: 190px;" src="http://www.youtube.com/embed/_gGgfl7A7Lw" frameborder="0" allowfullscreen></iframe> | ||
</html> | </html> | ||
==Introduction== | ==Introduction== | ||
DNA is famously used in biology as information storage and one of its most significant characteristic is stability. | DNA is famously used in biology as information storage, and one of its most significant characteristic is stability. | ||
Previously, many DNA nanostructures have been designed that made use of this stability. | Previously, many DNA nanostructures have been designed that made use of this stability. | ||
However, although stability is a merit of DNA, many functions requires a form of variability of the device that perform them. | However, although stability is a merit of DNA, many functions requires a form of variability of the device that perform them. | ||
It has been recently discovered that DNA can also be used to perform dynamic functions in artificial systems. | It has been recently discovered that DNA can also be used to perform dynamic functions in artificial systems. | ||
In this case DNA somehow plays the role of RNA molecules in biology. | In this case, DNA somehow plays the role of RNA molecules in biology. | ||
DNA based dynamic circuits can be used to perform computations, to build clocks, to control processes, or to create updatable memories that store some bits of information. | DNA based dynamic circuits can be used to perform computations, to build clocks, to control processes, or to create updatable memories that store some bits of information. | ||
In these cases however DNA molecules need to be continuously rearranged by participating in chemical reactions. | In these cases, however, DNA molecules need to be continuously rearranged by participating in chemical reactions. | ||
In some cases, they even need to be degraded for the function to occur. | In some cases, they even need to be degraded for the function to occur. | ||
Therefore, on one hand, DNA is a stable material used to build robust molecular shapes, and, on the other hand, it is a reactive participant of dynamic reaction networks. | |||
Can we bring back these two features together in order to get the best of both approaches ? | Can we bring back these two features together in order to get the best characteristic of both approaches ? | ||
UT-Komaba team tries to illustrate the potentials of this approach by designing the DNA tablet, the smallest tablet computer on earth. | |||
==Abstract== | ==Abstract== | ||
| Line 178: | Line 185: | ||
Inspired by tablet computers, we propose a DNA origami | Inspired by tablet computers, we propose a DNA origami that can display alternative pictures or show a short molecular movie, which we call DNA tablet. Our approach combines DNA nanotechnology and DNA dynamic circuits. To demonstrate the unveiling of different images, we created a DNA origami with two latent designs and connected it with a dynamic network having two stable states. This bistability ensures that only one of the two images is displayed at a time, and no intermediate erroneous displays are produced. | ||
The user can browse his library of images, by introducing a small amount of an image-specific tag sequence to switch the bistable system. The size of the library, currently two, could be extended by using a n-stable system to show n different pictures. Images on the DNA tablet are created by hybridization with the state-dependent products of the bistable network and can be observed by AFM. The DNA tablet can also be modified to cycle through several pictures autonomously | The user can browse his library of images, by introducing a small amount of an image-specific tag sequence to switch the bistable system. The size of the library, currently two, could be extended by using a n-stable system to show n different pictures. Images on the DNA tablet are created by hybridization with the state-dependent products of the bistable network and can be observed by AFM. The DNA tablet can also be modified to cycle through several pictures autonomously by adapting it to a DNA oscillator. | ||
==The Overview of Our Project== | |||
[[Image:BIOMOD-2012-UTkyo-UTKomaba-world map3.png|center|Overview|600px]] | |||
__NOEDITSECTION__ | |||
Latest revision as of 02:46, 28 October 2012
<html>
<style type="text/css"> <!--
- column-one {display:none; width:0px;}
- column-content {margin: 0;}
.container{background-color: #ffffff; margin-top:0px} .OWWNBcpCurrentDateFilled {display: none;}
- globalWrapper{margin: 0 auto; padding: 0; width: 900px;}
.firstHeading {display:none; width:0px;}
- content {margin-left: 0; padding: 0; border: none;}
- sidebar-main {display:none; width:0px;}
- footer{position: center; margin: 0;}
body {
margin: 0; font-family: Calibri, Verdana, helvetica, sans-serif; background: url(http://openwetware.org/images/2/21/Biomod-2012-ut-komaba-Metal-texture.jpg) darkgray repeat-y;
}
- content {
margin: 0;
}
/*title*/
- title{
margin: 10px 0; padding: auto; background-color: black; text-align :center;
}
- navi ul {
font-size: 12px; margin: 0 0 30px; padding: 0; text-align:center; height: 30px; background-color: black}
- navi ul li {
list-style-type: none; float: left; padding: 0; margin: 0; display: block}
- navi ul li a {
display: block; width: 100px; line-height: 30px; text-decoration: none; text-align: center; color: #ffffff; background-color: black;
}
- navi ul li a:hover {
background-color: gainsboro; color: black;
}
- bodyContent{
width: 800px;
margin: auto;
padding: 50px;
background: url("http://openwetware.org/images/c/c2/Biomod_2012_UToyko_UT-Komaba_background.png") white repeat-y;
font-size: 140%;
}
- toc{
font-size: 80%;
}
/* table */ table {
border: solid 1px black; border-collapse: collapse; border-spacing: 0;
}
table.noborder, table.noborder th, table.noborder td{
border: none;
}
table th{
border: solid 1px black; padding: 1px 5px; color: white; background-color: darkgray; text-align: center;
}
table td{
border: solid 1px black; padding: 1px 5px; text-align: center;
}
table.tdleft td{
text-align: left;
}
h1,h2,h3,h4 {
font-family: serif; clear: both;
}
table.dialog{
border: none;
}
table.dialog th{
border: none; padding-top: 0px; background-color: white; color: black; text-decolation: bold; text-align: left;
}
table.dialog td{
border: none; padding: 5px 0; text-align: left;
}
--> </style>
<div id="title"><img src="http://openwetware.org/images/6/61/Biomod_2012_UTokyo_UT-Komaba_title-home.gif" alt="DNA tablet" width="800" height="120" onClick="this.src='http://openwetware.org/images/7/7d/BIOMOD_2012_UTokyo_UT-Komaba_title-animation.gif'"/></div>
<div id="navi"> <ul>
<li><a href="/wiki/Biomod/2012/UTokyo/UT-Komaba">Home</a></li> <li><a href="/wiki/Biomod/2012/UTokyo/UT-Komaba/Idea">Idea</a></li> <li><a href="/wiki/Biomod/2012/UTokyo/UT-Komaba/Simulation">Simulation</a></li> <li><a href="/wiki/Biomod/2012/UTokyo/UT-Komaba/Experiment">Experiment</a></li> <li><a href="/wiki/Biomod/2012/UTokyo/UT-Komaba/Progress">Progress</a></li> <li><a href="/wiki/Biomod/2012/UTokyo/UT-Komaba/Episode">Episode</a></li> <li><a href="/wiki/Biomod/2012/UTokyo/UT-Komaba/Team">Team</a></li> <li><a href="/wiki/Biomod/2012/UTokyo/UT-Komaba/Supplementary">Supplementary</a></li>
</ul> </div>
</html>
Video
<html> <iframe width="420" height="315" style="margin-left: 190px; margin-right: 190px;" src="http://www.youtube.com/embed/_gGgfl7A7Lw" frameborder="0" allowfullscreen></iframe> </html>
Introduction
DNA is famously used in biology as information storage, and one of its most significant characteristic is stability. Previously, many DNA nanostructures have been designed that made use of this stability. However, although stability is a merit of DNA, many functions requires a form of variability of the device that perform them.
It has been recently discovered that DNA can also be used to perform dynamic functions in artificial systems. In this case, DNA somehow plays the role of RNA molecules in biology. DNA based dynamic circuits can be used to perform computations, to build clocks, to control processes, or to create updatable memories that store some bits of information. In these cases, however, DNA molecules need to be continuously rearranged by participating in chemical reactions. In some cases, they even need to be degraded for the function to occur.
Therefore, on one hand, DNA is a stable material used to build robust molecular shapes, and, on the other hand, it is a reactive participant of dynamic reaction networks. Can we bring back these two features together in order to get the best characteristic of both approaches ?
UT-Komaba team tries to illustrate the potentials of this approach by designing the DNA tablet, the smallest tablet computer on earth.
Abstract
Inspired by tablet computers, we propose a DNA origami that can display alternative pictures or show a short molecular movie, which we call DNA tablet. Our approach combines DNA nanotechnology and DNA dynamic circuits. To demonstrate the unveiling of different images, we created a DNA origami with two latent designs and connected it with a dynamic network having two stable states. This bistability ensures that only one of the two images is displayed at a time, and no intermediate erroneous displays are produced.
The user can browse his library of images, by introducing a small amount of an image-specific tag sequence to switch the bistable system. The size of the library, currently two, could be extended by using a n-stable system to show n different pictures. Images on the DNA tablet are created by hybridization with the state-dependent products of the bistable network and can be observed by AFM. The DNA tablet can also be modified to cycle through several pictures autonomously by adapting it to a DNA oscillator.
The Overview of Our Project
