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<html>
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__TOC__
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<head>
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<style>
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<!-- HIDE WIKI STUFF -->
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#column-one { display:none; width:0px;}
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'''EmbryoName HK023- chicken embryo- Stage 19.5 - 8.12.14'''
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.container{background-color: #ffffff; margin-top:0px}
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.OWWNBcpCurrentDateFilled {display: none;}
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#content {  width: 0px; margin: 0 auto auto 0;  padding: 0em 0em 0em 0em; align: center;}
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#column-content {width: 0px; float: left; margin: 0 0 0 0;padding: 0;}
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.firstHeading {display:none; width:0px;}
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#globalWrapper{width:984px; background-color: #ffffff; margin-left: auto; margin-right: auto}
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#column-one {display:none; width:0px;background-color: #ffffff;}
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#content{ margin: 0 0 0 0; align: center; padding: 12px; width: 960px;background-color: #ffff; border: 0;}
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#bodyContent{ width: 960px; align: center; background-color: #ffffff;}
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#column-content{width: 984px;background-color: #ffff;}
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#footer{display: none; position: center; width: 960px}
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@media screen {
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    body { background: #ffffff url(http://openwetware.org/images/1/14/Biomod-2012-utokyo-uthongo-wrapper-bg.jpg) repeat; }
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}
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</style>
 
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<style>
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==Experiment==
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* {
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'''Objective'''
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text-shadow: 0px 1px 2px #aaa;
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Dyes of different colours on Trigeminal (DiO) vs 7/8th nerve complex (DiI) to see interactions between efferents of one nerve and afferents of other. Also to practice the injection on a younger chicken (slowly moving down to stage 18-17)
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}
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#bodyContent, #column-content, #content {
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'''Procedure'''
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background: #ffffff url(http://openwetware.org/images/1/14/Biomod-2012-utokyo-uthongo-wrapper-bg.jpg) repeat;
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}
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#column-content {
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* Trigeminal nerve bilaterally DiO crystals
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border-left: 1px solid #888;
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* 7th/8th nerve bilaterally DiI crystals (Big chunk on 7th nerve on L side and big chunk on 8th on R side)
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border-right: 1px solid #888;
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}
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#header {
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'''Notes'''
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  width: 960px;
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No obvious contamination, purposelly put a greater chunk of dye on the 7th nerve on the L side and the 8th nerve on the R side so will see if there is any visible difference between the amount of neurons labelled in different positions within the rhombomere.  
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  height: 304px;
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  background: url(http://openwetware.org/images/3/3b/Biomod-2012-UTokyo-UT-Hongo_header_test2.png) no-repeat;
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  padding: 0px 0px 0px 0px;
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/*  border-bottom: 1px solid #DEDEDE; */
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}
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#menu {
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==Files==
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  display: block;
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  width: 956px;
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  padding: 0px;
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  background-color: black;
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  border: 2px solid #888;
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  margin-bottom: 15px;
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}
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ul.menu li a {
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*
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*  
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/* border: 1px solid #474655; */
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*  
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  padding: 8px 10px;
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*  
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  text-decoration: none;
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/* color: #333; */
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  color: #fff;
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/* width: 121px;  */
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  text-align: center;
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  font-size: large;
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}
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ul.menu li a:hover{
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*
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  color: cyan;
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**
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}
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**
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ul.menu {
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==Results==
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/*  display: none;
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  position: absolute; */
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  height: 40px;
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  margin:0;
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  padding:0;
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  list-style:none;
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  float: center;
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}
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ul.menu li {
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===Facial===
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/*  display:inline;*/
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(Green)
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  margin:0;
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  padding:6px;
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  float: left;
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  position: relative;
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}
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ul.menu li:hover ul {
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* '''''Afferents'''''
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   display: block;
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  position: absolute;
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  z-index: 100;
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}
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ul.submenu {
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* '''''Efferents'''''
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  display: none;
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  list-style: none;
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  background-color: #f0f0f0;
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  border: 1px solid #ccc;
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}
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ul.submenu li {
 
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  float: none;
 
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  margin: 0px;
 
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}
 
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ul.submenu li a {
 
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  text-align: left;
 
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  margin: 0px;
 
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  width: 340px;
 
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  padding: 0 0 0 12px;
 
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  color: black;
 
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  text-decoration: none;
 
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  font-size: large
 
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}
 
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ul.submenu li a:hover {
 
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  color: black;
 
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  text-decoration: underline;
 
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}
 
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.thumb {
 
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  border-image: url(http://openwetware.org/images/1/14/Biomod-2012-utokyo-uthongo-wrapper-bg.jpg) repeat;
 
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}
 
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.mytable {
 
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  border-image: url(http://openwetware.org/images/1/14/Biomod-2012-utokyo-uthongo-wrapper-bg.jpg) repeat;
 
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}
 
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</style>
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===VIII ===
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</head>
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(green)
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<body>
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  <div style="text-align: right">
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* '''''Afferents'''''
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    <p><a href="http://openwetware.org/index.php?title=Template:Biomod/2012/UTokyo/UT-Hongo&action=edit">edit this header</a></p>
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  </div>
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  <div style="height: 60px; margin-bottom: 18px;">
 
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    <div style="float: left; width: 250px; padding: 3px; background-color: white;">
 
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      <a href="http://biomod.net/"><img src="http://openwetware.org/images/8/82/Biomod2012-logo.png" width="250px" height="50px"></img></a>
 
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    </div>
 
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    <div style="float: right; width: 240px; padding: 3px; background-color: white;">
 
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      <a href="http://www.u-tokyo.ac.jp/en/" target="_blank"><img src="http://www.u-tokyo.ac.jp/en/images/banner/UT-logo.gif" width="234" height="60" border="0" alt="The University of Tokyo"></img></a>
 
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    </div>
 
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  </div>
 
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    <div id="header">
 
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    </div>
 
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    <div id="menu">
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* '''''Efferents'''''
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      <ul class="menu">
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<li class="toppage"><a href="/wiki/Biomod/2012/UTokyo/UT-Hongo">Top</a></li>
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<li class="motives"><a href="/wiki/Biomod/2012/UTokyo/UT-Hongo/Intro">Motives</a></li>
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<!-- <li class="design"><a href="/wiki/Biomod/2012/UTokyo/UT-Hongo/Function">Design</a></li> -->
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<li class="result"><a href="/wiki/Biomod/2012/UTokyo/UT-Hongo/Assembly">Design & Results</a>
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  <ul class="submenu">
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    <li><a href="/wiki/Biomod/2012/UTokyo/UT-Hongo/Assembly#Assembly_of_the_DNA_Shell">Assembly of the DNA Shell</a></li>
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    <li><a href="/wiki/Biomod/2012/UTokyo/UT-Hongo/Assembly#Capturing_ability">Capturing Ability</a></li>
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    <li><a href="/wiki/Biomod/2012/UTokyo/UT-Hongo/Assembly#Immobilizing_on_microfluidic_device">Immobilizing on microfluidic device</a></li>
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    <li><a href="/wiki/Biomod/2012/UTokyo/UT-Hongo/Assembly#Supporting_Enzyme">Supporting Enzyme</a></li>
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  </ul>
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</li>
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<li class="method"><a href="/wiki/Biomod/2012/UTokyo/UT-Hongo/Method">Method</a></li>
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<li class="futurework"><a href="/wiki/Biomod/2012/UTokyo/UT-Hongo/FutureWork">Progress & Beyond</a></li>
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<li class="team"><a href="/wiki/Biomod/2012/UTokyo/UT-Hongo/Team">Team</a></li>
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<li class="acknowledgement"><a href="/wiki/Biomod/2012/UTokyo/UT-Hongo/Acknowledgement">Acknowledgement</a></li>
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      </ul>
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    </div>
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</body>
 
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</html>
 
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* '''''Other'''''
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==Institutional Affiliation==
 
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Assistant Professor
 
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Department of Physiology & Membrane Biology
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===Basal plate ===
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(red)
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School of Medicine
 
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University of California
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==Summary==
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4126 Tupper Hall
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'''Questions'''
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One Shields Avenue
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'''Future'''
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Davis, California 95616
 
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530.752.4131 tel
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<META HTTP-EQUIV="refresh" CONTENT="10;URL=http://my.newplace.com/">
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530.752.5314 lab tel
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530.752.5423 fax
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jsack@ucdavis.edu
 
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==Math Practice==
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Mary {pad|4em} had a little lamb.
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''x''<sup>2</sup>+''y''<sup>2</sup>=''z''<sup>2</sup>
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'''Badrul Arefin'''
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{{math|''x''<sup>2</sup>+''y''<sup>2</sup>{{=}}''z''<sup>2</sup>}}
 
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<math>x^2+y^2=z^2</math>
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# Jeong M^, {{spaces|7}} <u>Sun D^</u>, Luo M^, Huang Y, Challen GA, <u>Rodriguez B</u>, Zhang X, Chavez L, Wang H, Hannah R, Kim S, Yang L, Ko M, Chen R, Gottgens B, Lee JS, Gunaratne P, Godley LA, Darlington GJ, Rao A, <u>Li W*</u>, Goodell MA*: Large conserved domains of low DNA methylation maintained by Dnmt3a. <br/> '''''          Nature Genetics''''' . Accepted.
-
 
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# <u>Akdemir KC</u>, Jain AK, Alton K, Arronow B, J. CA, ..., <u>Li W*</u>, Barton MC*: Genome Wide Profiling Reveals Stimulus-specific Functions of p53 During Differentiation and DNA Damage of Human Embryonic Stem Cells. <br/>'''''Nucleic Acids Res.''''' Accepted
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&sum;i=∞
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# Klein JB, Piao L, …, <u>Li W</u>, Shi X, Kutateladze TG: KDM5B demethylase binds to its histone target and the product through distinct modules.<br/>''Cell Reports''. Accepted. <br/><br/>'''2013''' <br/><br/>
-
 
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# <u>Chen K</u>, <u>Xi Y</u>, Pan X, Dent S, He X, <u>Li W*</u>: DANPOS: Dynamic Analysis of Nucleosome Position and Occupancy by Sequencing. <br/>'''''Genome Res.''''' 23 (2013) 341-351. [http://www.bcm.edu/news/item.cfm?newsID=6723 BCM News];  [http://epigenie.com/danpos-reveals-dynamic-nucleosomes Epigenie Headline]  <br/><br/>
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<math>e^{\pi i} + 1 = 0</math>
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# <u>Wang L</u>, <u>Park JH</u>, Wang S, Kocher JP, <u>Li W*</u>: CPAT: Coding-Potential Assessment Tool Using an Alignment-Free Logistic Regression Model. <br/>'''''Nucleic Acids Res.''''' 41 (2013) e74.<br/><br/>
-
 
+
# <u>Lin X</u>, <u>Sun D</u>, <u>Rodriguez B</u>, Zhao Q, Sun H, Zhang Y, <u>Li W*</u>: BseQC: Quality Control of bisulfite sequencing experiments. <br/>'''''Bioinformatics''''' 29 (2013) 3227-3229. PMCID: PMC3842756 .<br/><br/>
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<math>\frac{\sqrt{2\alpha_1+e^2}}{\log \alpha_2}</math>
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# <u>Chen K^</u>, Wilson MA^, Hirsch C, Watson A, Liang S, Lu Y, <u>Li W*</u>, Dent S*: Stabilization of the Promoter Nucleosomes in Nucleosome Free Region by the Yeast Ssn6-Tup1 Corepressor. <br/>'''''Genome Res.''''' 23 (2013) 312-322. <br/><br/>
-
 
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==Google Docs==
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{{#widget:Google Document
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|id=19hEjXbw_pwVjY5vwu-hQGfqpLTuwWQemRzEsCvJw640
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}}
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<html>
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<div id="car" style="width:100%; color:#SAFRDA;">
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hai
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</div>
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</html>
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Current revision

Contents


EmbryoName HK023- chicken embryo- Stage 19.5 - 8.12.14


Experiment

Objective Dyes of different colours on Trigeminal (DiO) vs 7/8th nerve complex (DiI) to see interactions between efferents of one nerve and afferents of other. Also to practice the injection on a younger chicken (slowly moving down to stage 18-17)

Procedure

  • Trigeminal nerve bilaterally DiO crystals
  • 7th/8th nerve bilaterally DiI crystals (Big chunk on 7th nerve on L side and big chunk on 8th on R side)

Notes No obvious contamination, purposelly put a greater chunk of dye on the 7th nerve on the L side and the 8th nerve on the R side so will see if there is any visible difference between the amount of neurons labelled in different positions within the rhombomere.

Files

Results

Facial

(Green)

  • Afferents


  • Efferents




VIII

(green)

  • Afferents


  • Efferents


  • Other


Basal plate

(red)


Summary

Questions

Future


<META HTTP-EQUIV="refresh" CONTENT="10;URL=http://my.newplace.com/">


Mary {pad|4em} had a little lamb.

Badrul Arefin


  1. Jeong M^, Template:Spaces Sun D^, Luo M^, Huang Y, Challen GA, Rodriguez B, Zhang X, Chavez L, Wang H, Hannah R, Kim S, Yang L, Ko M, Chen R, Gottgens B, Lee JS, Gunaratne P, Godley LA, Darlington GJ, Rao A, Li W*, Goodell MA*: Large conserved domains of low DNA methylation maintained by Dnmt3a.
    Nature Genetics . Accepted.
  2. Akdemir KC, Jain AK, Alton K, Arronow B, J. CA, ..., Li W*, Barton MC*: Genome Wide Profiling Reveals Stimulus-specific Functions of p53 During Differentiation and DNA Damage of Human Embryonic Stem Cells.
    Nucleic Acids Res. Accepted
  3. Klein JB, Piao L, …, Li W, Shi X, Kutateladze TG: KDM5B demethylase binds to its histone target and the product through distinct modules.
    Cell Reports. Accepted.

    2013

  4. Chen K, Xi Y, Pan X, Dent S, He X, Li W*: DANPOS: Dynamic Analysis of Nucleosome Position and Occupancy by Sequencing.
    Genome Res. 23 (2013) 341-351. BCM News; Epigenie Headline

  5. Wang L, Park JH, Wang S, Kocher JP, Li W*: CPAT: Coding-Potential Assessment Tool Using an Alignment-Free Logistic Regression Model.
    Nucleic Acids Res. 41 (2013) e74.

  6. Lin X, Sun D, Rodriguez B, Zhao Q, Sun H, Zhang Y, Li W*: BseQC: Quality Control of bisulfite sequencing experiments.
    Bioinformatics 29 (2013) 3227-3229. PMCID: PMC3842756 .

  7. Chen K^, Wilson MA^, Hirsch C, Watson A, Liang S, Lu Y, Li W*, Dent S*: Stabilization of the Promoter Nucleosomes in Nucleosome Free Region by the Yeast Ssn6-Tup1 Corepressor.
    Genome Res. 23 (2013) 312-322.

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