Biomod/2012/UTokyo/UT-Komaba/Experiment: Difference between revisions

From OpenWetWare
Jump to navigationJump to search
Line 24: Line 24:
<html>
<html>
<a href="http://openwetware.org/wiki/Biomod/2012/UTokyo/UT-Komaba/Experiment/DNA_Tablet"><img src="http://openwetware.org/images/7/72/Biomod_2012_UTokyo_UT-Komaba_Experiment_Icon_DNATablet.png" width="250px" height="110px" /></a></html>
<a href="http://openwetware.org/wiki/Biomod/2012/UTokyo/UT-Komaba/Experiment/DNA_Tablet"><img src="http://openwetware.org/images/7/72/Biomod_2012_UTokyo_UT-Komaba_Experiment_Icon_DNATablet.png" width="250px" height="110px" /></a></html>
==Glossary==
===Buffer===
{| class="tdleft"
! TAE
| Essential buffer for making origami, which contains TAE
|-
! Mg2+
| Essential for keeping the shape of origami
|-
! Smix
| Buffer contains a lot of essential chemicals
|-
! DTT
| Buffer which contains DTT
|-
! dTTP
| Buffer which contains dTTP
|-
! BSA
| Buffer which contains BSA
|-
! mQ
| Pure water
|}
===Enzymes===
{| class="tdleft"
! NBI
| Buffer which contains DNA nickase
|-
! Bst
| Buffer which contains DNA polymerase
|-
! tt-RecJ
| Buffer which contains DNA exonuclease
|-
|}
===DNA===
{| class="tdleft"
! M13
| Sccafold strand
|-
! VII
| Strand for Dynamic system
|-
! XII
| Strand for Dynamic system
|-
! DII
| Strand for Dynamic system
|-
! NII
| Strand for Dynamic system
|-
|}
===Templates===
{| class="tdleft"
! CvII
| Autocatalysis template for VII
|-
! CxII
| Autocatalysis template for XII
|-
! V to inhX
| Template which produces inhibitor to XII-autocatalisys from VII
|-
! V to inh Q
| Template which produces inhibitor to QII-autocatalisys from VII
|-
! X to inh V
| Template which produces inhibitor to VII-autocatalisys from XII
|-
! X to inh Q
| Template which produces inhibitor to QII-autocatalisys from XII
|-
! Q to inh V
| Template which produces inhibitor to VII-autocatalisys from QII
|-
! Q to inh X
| Template which produces inhibitor to XII-autocatalisys from QII
|-
! D to V
| Template which produces VII from DII
|-
! N to X
| Template which produces XII from NII
|}


=Lab Notes=
=Lab Notes=

Revision as of 12:56, 27 October 2012

<html>

<style type="text/css"> <!--

  1. column-one {display:none; width:0px;}
  2. column-content {margin: 0;}

.container{background-color: #ffffff; margin-top:0px} .OWWNBcpCurrentDateFilled {display: none;}

  1. globalWrapper{margin: 0 auto; padding: 0; width: 900px;}


.firstHeading {display:none; width:0px;}

  1. content {margin-left: 0; padding: 0; border: none;}
  2. sidebar-main {display:none; width:0px;}
  3. 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;

}

  1. content {
  margin: 0;

}

/*title*/

  1. title{
 margin: 10px 0;
 padding: auto;
 background-color: black;
 text-align :center;

}

  1. navi ul {
 font-size: 12px;
 margin: 0 0 30px;
 padding: 0;
 text-align:center;
 height: 30px;
 background-color: black}
  1. navi ul li {
 list-style-type: none;
 float: left;
 padding: 0;
 margin: 0;
 display: block}
  1. navi ul li a {
 display: block;
 width: 100px;
 line-height: 30px;
 text-decoration: none;
 text-align: center;
 color: #ffffff;
 background-color: black;

}

  1. navi ul li a:hover {
 background-color: gainsboro;
 color: black;

}


  1. 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%;

}

  1. 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/4/47/Biomod_2012_UTokyo_UT-Komaba_Top.png" 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>


Experiment

Please click on the section you want to see.

Dynamic System

<html> <a href="http://openwetware.org/wiki/Biomod/2012/UTokyo/UT-Komaba/Experiment/Normal_Bistable"><img src="http://openwetware.org/images/3/31/Biomod_2012_UTokyo_UT-Komaba_Experiment_Icon_NormalBistable.png" width="250px" height="110px" alt="Normal Bistable" /></a> <a href="http://openwetware.org/wiki/Biomod/2012/UTokyo/UT-Komaba/Experiment/Indirect_Bistable"><img src="http://openwetware.org/images/7/79/Biomod_2012_UTokyo_UT-Komaba_Experiment_Icon_IndirectBistable.png" width="250px" height="110px" alt="Indirect Bistable" /></a> <a href="http://openwetware.org/wiki/Biomod/2012/UTokyo/UT-Komaba/Experiment/Trioscillate_System"><img src="http://openwetware.org/images/8/88/Biomod_2012_UTokyo_UT-Komaba_Experiment_Icon_TrioscillatorSystem.png" width="250px" height="110px" alt="Trioscillate System" /></a> </html>

DNA Origami

<html> <a href="http://openwetware.org/wiki/Biomod/2012/UTokyo/UT-Komaba/Experiment/Original_Origami"><img src="http://openwetware.org/images/7/76/Biomod_2012_UTokyo_UT-Komaba_Experiment_Icon_OriginalOrigami.png" width="250px" height="110px" /></a> <a href="http://openwetware.org/wiki/Biomod/2012/UTokyo/UT-Komaba/Experiment/Modified_Origami"><img src="http://openwetware.org/images/3/3a/Biomod_2012_UTokyo_UT-Komaba_Experiment_Icon_ModifiedOrigami.png" width="250px" height="110px" /></a> </html>

DNA Tablet

<html> <a href="http://openwetware.org/wiki/Biomod/2012/UTokyo/UT-Komaba/Experiment/DNA_Tablet"><img src="http://openwetware.org/images/7/72/Biomod_2012_UTokyo_UT-Komaba_Experiment_Icon_DNATablet.png" width="250px" height="110px" /></a></html>


Glossary

Buffer

TAE Essential buffer for making origami, which contains TAE
Mg2+ Essential for keeping the shape of origami
Smix Buffer contains a lot of essential chemicals
DTT Buffer which contains DTT
dTTP Buffer which contains dTTP
BSA Buffer which contains BSA
mQ Pure water

Enzymes

NBI Buffer which contains DNA nickase
Bst Buffer which contains DNA polymerase
tt-RecJ Buffer which contains DNA exonuclease

DNA

M13 Sccafold strand
VII Strand for Dynamic system
XII Strand for Dynamic system
DII Strand for Dynamic system
NII Strand for Dynamic system

Templates

CvII Autocatalysis template for VII
CxII Autocatalysis template for XII
V to inhX Template which produces inhibitor to XII-autocatalisys from VII
V to inh Q Template which produces inhibitor to QII-autocatalisys from VII
X to inh V Template which produces inhibitor to VII-autocatalisys from XII
X to inh Q Template which produces inhibitor to QII-autocatalisys from XII
Q to inh V Template which produces inhibitor to VII-autocatalisys from QII
Q to inh X Template which produces inhibitor to XII-autocatalisys from QII
D to V Template which produces VII from DII
N to X Template which produces XII from NII

Lab Notes

<html> <a href="http://openwetware.org/wiki/Biomod/2012/UTokyo/UT-Komaba/Experiment/Lab_Notes"><img src="http://openwetware.org/images/b/b7/Biomod_2012_UTokyo_UT-Komaba_Experiment_Icon_LabNotes.png" width="250px" height="110px" /></a></html>

Retrieved from "https://openwetware.org/mediawiki/index.php?title=Biomod/2012/UTokyo/UT-Komaba/Experiment&oldid=646222"