Biomod/2011/TUM/TNT/LabbookA/2011/08/11: Difference between revisions

From OpenWetWare
Jump to navigationJump to search
No edit summary
No edit summary
Line 7: Line 7:
|style="background-color: #F2F2F2" align="center"|
|style="background-color: #F2F2F2" align="center"|
<html><img src="/images/9/94/Report.png" border="0" /></html>  
<html><img src="/images/9/94/Report.png" border="0" /></html>  
[[{{#sub:{{FULLPAGENAME}}|0|-11}}|Main project page]]
[[{{#sub:{{FULLPAGENAME}}|0|-11}}|Main project page|12px]]
<br />
<br />
{{#if:{{#lnpreventry:{{FULLPAGENAME}}}}|
{{#if:{{#lnpreventry:{{FULLPAGENAME}}}}|
<html><img src="/images/c/c3/Resultset_previous.png" border="0" /></html>
<html><img src="/images/c/c3/Resultset_previous.png" border="0" /></html>
[[{{#lnpreventry:{{FULLPAGENAME}}}}{{!}}Previous entry|12px]]
[[{{#lnpreventry:{{FULLPAGENAME}}}}{{!}}Previous entry]]
<html>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</html>
<html>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</html>
}}{{#if:{{#lnnextentry:{{FULLPAGENAME}}}}|[[{{#lnnextentry:{{FULLPAGENAME}}}}{{!}}Next entry]]
}}{{#if:{{#lnnextentry:{{FULLPAGENAME}}}}|[[{{#lnnextentry:{{FULLPAGENAME}}}}{{!}}Next entry]]

Revision as of 18:12, 29 October 2011

<html> 

  <style>
  1. column-one { display:none; width:0px;}

.container{background-color: #f5f5f5; margin-top:50px} .OWWNBcpCurrentDateFilled {display: none;}

  1. content { width: 0px; margin: 0 auto auto 0; padding: 1em 1em 1em 1em; align: center;}
  1. column-content {width: 0px; float: left; margin: 0 0 0 0;padding: 0;}

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

  1. globalWrapper{ width:1280px;}

h6 { color: black; background: none; font-weight: normal; margin: 0; padding-top: .5em; padding-bottom: .17em; border-bottom: 0px solid #aaa; } h6 { font-size: 188%; } h6 .editsection { font-size: 53%; }

  1. column-one {display:none; width:0px;background-color: #ffffff;}
  1. content{ margin: 0 0 0 0; padding: 1em 1em 1em 1em; position: center; width: 800px;background-color: #f5f5f5; }

.container{ width: 800px; margin: auto; background-color: #ffffff; text-align:justify; font-family: helvetica, arial, sans-serif; color:#555555; margin-top:25px; }

  1. bodyContent{ width: 1267px; align: center; background-color: #ffffff;}
  1. column-content{width: 1280px;background-color: #f5f5f5;}

.firstHeading { display:none;width:0px;background-color: #ffffff;}

  1. header{position: center; width: 800px;background-color: #ffffff;}
  1. footer{position: center;}


  1. bodyContent h6 {

margin-bottom: .6em; }

  1. bodyContent .plainlinks a {

background: none !important; padding: 0 !important; } .portlet h6 { margin: 0; padding: 0; }

<style type="text/css"> body { 

   font-family: helvetica, arial, sans-serif;
   color: black;

background:#f5f5f5; 

 }

ul#topnav {

margin: 0 0 0 0px ; padding: 0 0 0 3px; float: left; width: 800px; list-style: none; position: relative; 

       font-family: helvetica, arial, sans-serif;

font-size: 12px; background: #f5f5f5; 

       height: 5px;

} ul#topnav li { float: left; margin: 0; padding: 0; border-right: 1px solid #ffffff; /*--Divider for each parent level links--*/ } ul#topnav li a { padding: 11px 15px; display: block; color: #333333; text-decoration: none; } ul#topnav li:hover { background: #f5f5f5;} /*--Notice the hover color is on the list item itself, not on the link. This is so it can stay highlighted even when hovering over the subnav--*/

ul#topnav li span { float: left; padding: 15px 0; position: absolute; left: 0; top:30px; display: inline; /*--Hide by default--*/ width: 800px; background: #cccccc; color: #333333; /*--Bottom right rounded corner--*/ -moz-border-radius-bottomright: 5px; -khtml-border-radius-bottomright: 5px; -webkit-border-bottom-right-radius: 5px; /*--Bottom left rounded corner--*/ -moz-border-radius-bottomleft: 5px; -khtml-border-radius-bottomleft: 5px; -webkit-border-bottom-left-radius: 5px; } ul#topnav li:hover span { display: block; } /*--Show subnav on hover--*/ ul#topnav li span a { display: inline;} /*--Since we declared a link style on the parent list link, we will correct it back to its original state--*/ ul#topnav li span a:hover {text-decoration: underline;}


  1. abstractandlinks{

display:block; width:800px; background-color:#f5f5f5; text-align:justify;font-family: helvetica, arial, sans-serif; color:#555555; margin-top:0px; }

  1. innerBox

{ display: block; padding: 5px; }

  1. abstract{

font-family: helvetica, arial, sans-serif; width: 490px; margin-top: 20px; padding:0px 5px; float: left;background-color:#f5f5f5; ; }

  1. links{

font-family: helvetica, arial, sans-serif; width: 290px; margin-top: 20px; padding:0px 5px; float: left; background-color:#f5f5f5;; } .clear { clear:both; }

  1. tour{

font-family: helvetica, arial, sans-serif; width: 790px; padding:0px 5px; margin-top: 1em, margin-bottom: 1em; float: left;background:#f5f5f5; font-size: 2em; }

  1. struktur{

font-family: helvetica, arial, sans-serif; width: 790px; padding:0px 5px; float: left;background:#f5f5f5; }

  1. toctitle {align: left; text-align: left; }
  2. table.toc {background-color:"#5f5f5f";align: left; text-align: left;}
  3. toc #toctitle, .toc #toctitle, #toc .toctitle, .toc .toctitle {

text-align: left; 

}
  1. toc, .toc, .mw-warning {

background-color: #f5f5f5; border-bottom-color: rgb(170, 170, 170); border-bottom-style: solid; border-bottom-width: 0px; border-left-color: rgb(170, 170, 170); border-left-style: solid; border-left-width: 0px; border-right-color: rgb(170, 170, 170); border-right-style: solid; border-right-width: 0px; border-top-color: rgb(170, 170, 170); border-top-style: solid; border-top-width: 0px; font-size: 105%; padding-bottom: 5px; padding-left: 5px; padding-right: 5px; padding-top: 5px; align: left; text-align: left; display: left 

}


</style>

<head>

<script type="text/javascript"> var fullDates = new Array('08/11/2011','08/12/2011','08/16/2011','08/17/2011','08/23/2011','08/24/2011','08/25/2011','08/29/2011','08/30/2011','08/31/2011','09/01/2011','09/02/2011','09/06/2011','09/12/2011','09/13/2011','09/14/2011','09/15/2011','09/16/2011','09/19/2011','09/20/2011','09/21/2011','09/27/2011','09/28/2011','09/29/2011','09/30/2011','10/05/2011','10/06/2011','10/07/2011','10/10/2011','10/12/2011','10/13/2011','10/14/2011','10/17/2011','10/18/2011','10/19/2011','10/20/2011','10/21/2011','10/26/2011','10/27/2011','10/28/2011','10/30/2011');

$(document).ready(function() {

$("ul#topnav li").hover(function() { //Hover over event on list item $(this).css({ 'background' : '#cccccc'}); //Add background color and image on hovered list item $(this).find("span").show(); //Show the subnav

} ,

$("ul#topnav li").oneclick(function() { //Hover over event on list item $(this).css({ 'background' : '#cccccc'; 'display' : 'inline'}); //Add background color and image on hovered list item $(this).find("span").show(); //Show the subnav

} ,

function() { //on hover out...


$(this).css({ 'background' : 'none'}); //Ditch the background

//$(this).find("span").hide(); //Hide the subnav });

}); </script>


<script type="text/javascript" src="http://ajax.googleapis.com/ajax/libs/jquery/1.3/jquery.min.js"></script>


<meta http-equiv="Content-Type" content="text/html; charset=utf-8" /> 

 <script type="text/javascript" src="http://ajax.googleapis.com/ajax/libs/jquery/1.4.2/jquery.min.js"></script>
 <script type="text/javascript">
  $(document).ready(function(){
   $('#lside1').mouseover(function() {
    $('#lside1').stop().animate({backgroundPosition: '0px 0px'}, 1000);
   });
   $('#lside1').mouseleave(function() {
    $('#lside1').stop().animate({backgroundPosition: '-250px 0px'}, 1000);
   });
   $('#lside2').mouseover(function() {
    $('#lside2').stop().animate({backgroundPosition: '0px 0px'}, 1000);
   });
   $('#lside2').mouseleave(function() {
    $('#lside2').stop().animate({backgroundPosition: '-250px 0px'}, 1000);
   });
   $('#lside3').mouseover(function() {
    $('#lside3').stop().animate({backgroundPosition: '0px 0px'}, 1000);
   });
   $('#lside3').mouseleave(function() {
    $('#lside3').stop().animate({backgroundPosition: '-250px 0px'}, 1000);
   });
  });
 </script>

<style type="text/css"> 

  #side1 {
   width: 250px;
   height: 100px;
   position: relative;
   top: 0px;
   left: 20px;}

  #lside1 {
   width: 250px;
   height: 100px;
   background: url(http://www.tftshop.net/Testbild_100ppi.jpg) -250px 0px no-repeat;
   position: absolute;
   top: 0px;
   left: 0px;}

  #side2 {
   width: 250px;
   height: 100px;
   position: relative;
   top: 0px;
   left: 20px;}

  #lside2 {
   width: 250px;
   height: 100px;
   background: url(http://www.tftshop.net/Testbild_100ppi.jpg) -250px 0px no-repeat;
   position: absolute;
   top: 0px;
   left: 0px;}

  #side3 {
   width: 250px;
   height: 100px;
   position: relative;
   top: 0px;
   left: 20px;}

  #lside3 {
   width: 250px;
   height: 100px;
   background: url(http://www.tftshop.net/Testbild_100ppi.jpg) -250px 0px no-repeat;
   position: absolute;
   top: 0px;
   left: 0px;}

 </style>

<script type="text/javascript" src="http://ajax.googleapis.com/ajax/libs/jquery/1.4.2/jquery.min.js"></script> <script type="text/javascript"> 

$(document).ready(function(){
 $('#mainpic').attr('src',

'http://openwetware.org/wiki/Image:U1.png'); 

 $('#mainpic').attr('src',

'http://australian-kanguru-watchers.de/wp-content/uploads/2009/11/dnet24-testbild.jpg'); 

 $('#mainpic').attr('src',

'http://eschbaer.de/wp-content/uploads/final_testbild.png'); 

 $('#mainpic').attr('src',

'http://www.media-digest.com/wp-content/uploads/2009/05/test-pattern-briefs.jpg'); 

 $("#but1").mouseenter(function() {
  $('#mainpic').attr('src', 'http://www.cnet.co.uk/i/c/rv/e/digitalcameras/fujifilm/finepix_f200exr/f200exrstorygraphic1large.jpg');
 });
 $("#but2").mouseenter(function() {
  $('#mainpic').attr('src',

'http://xmas.tfoe.net/img/testbild.jpg'); 

 });
 $("#but3").mouseenter(function() {
  $('#mainpic').attr('src',

'http://www.tv-testbild.com/bilder/nbc-320.jpg'); 

 });
 $("#but4").mouseenter(function() {
  $('#mainpic').attr('src',

'http://www.tv-testbild.com/pictures/orf2.jpg'); 

 });

});

</script> <style type="text/css"> 

#maincon {
 width:800px;
 position:relative;}
#mainpic {
 width:800px;}
#but1 {
 width:60px;
 height:60px;
 position:absolute;
 left:88px;
 top:19px;
 z-index:2;
 background-image:url('http://openwetware.org/wiki/Image:U1.png');}
#but2 {
 width:60px;
 height:60px;
 position:absolute;
 left:489px;
 top:220px;
 z-index:2;
 background-image:url('http://upload.wikimedia.org/wikipedia/commons/thumb/0/07/Button_Icon_Red.svg/300px-Button_Icon_Red.svg.png');}
#but3 {
 width:60px;
 height:60px;
 position:absolute;
 left:320px;
 top:302px;
 z-index:2;
 background-image:url('http://www.lefinnois.net/aqua/aqua1.jpg');}
#but4 {
 width:60px;
 height:60px;
 position:absolute;
 left:509px;
 top:4px;
 z-index:2;
 background-image:url('http://www.lefinnois.net/aqua/aqua1.jpg');}

</style>



<title> 

       TUM NanU - Home

</title> </head>

<body background-color="#F0F0F0"> <!-- Header--> <div class="container"> 

   <div id="header"> <img src="http://openwetware.org/images/5/5c/Header2.png" /> </div>

<!--Menue--> <ul id="topnav"> 

   <li><a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Home">Home</a></li>
   <li><a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Project">Project</a>        
              
   </li>
   <li><a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Methods">Methods</a>
      
   </li>
   <li><a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Results">Results & Discussion</a>
       
   </li>
   <li><a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Outlook">Outlook</a></li>
   <li><a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Team">Team</a></li>
   <li><a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Glossary">Glossary</a></li>

<li><a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Video">Video</a>


</li> 

   <li><a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Extras">Extras</a>
       
  </li>
 <li style="background-color: #cccccc"><a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT/LabbookA"><b>Labbook</b></a><!--Subnav Starts Here-->
       <span>
           <a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT/LabbookA">Main Page</a>||
           <a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT/LabbookA/Structure_page">Structure</a>|
           <a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT/LabbookA/list_TEM_pictures">TEM</a>|
           <a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT/LabbookA/2011/TIRF">Fluorescence microscopy</a>|
           <a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT/LabbookA/2011/Dyes">Dyes & DNA-binders</a>
        </span>
   </li>

</ul> <p> <br> </p> <p> <br> </p> <p> <br> </p>

</body> </html> <html> <head> <script type= "text/javascript">/*<![CDATA[*/ var skin = "monobook"; var stylepath = "/skins"; var wgArticlePath = "/wiki/$1"; var wgScriptPath = ""; var wgScript = "/index.php"; var wgVariantArticlePath = false; var wgActionPaths = []; var wgServer = "http://openwetware.org"; var wgCanonicalNamespace = ""; var wgCanonicalSpecialPageName = false; var wgNamespaceNumber = 0; var wgPageName = "Biomod/2011/TUM/TNT/LabbookA"; var wgTitle = "Biomod/2011/TUM/TNT/LabbookA"; var wgAction = "view"; var wgArticleId = "103214"; var wgIsArticle = true; var wgUserName = "Alexander Hipp"; var wgUserGroups = ["*", "user", "autoconfirmed"]; var wgUserLanguage = "en"; var wgContentLanguage = "en"; var wgBreakFrames = false; var wgCurRevisionId = "546400"; var wgVersion = "1.13.2"; var wgEnableAPI = true; var wgEnableWriteAPI = false; var wgMWSuggestTemplate = "http://openwetware.org/api.php?action=opensearch\x26search={searchTerms}\x26namespace={namespaces}"; var wgDBname = "owwdb"; var wgSearchNamespaces = [0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 100, 101, 110, 111]; var wgMWSuggestMessages = ["with suggestions", "no suggestions"]; var wgRestrictionEdit = []; var wgRestrictionMove = []; var wgAjaxWatch = {"watchMsg": "Watch", "unwatchMsg": "Unwatch", "watchingMsg": "Watching...", "unwatchingMsg": "Unwatching..."}; /*]]>*/</script>

<script type="text/javascript" src="/skins/common/wikibits.js?164"><!-- wikibits js --></script> <!-- Head Scripts --> <script type="text/javascript" src="/js/calendar.js"></script> <script type="text/javascript"> function lnCalendar(){ 

 var callncal1 = new CalendarPopup('lncal1');
 var wikiPage = 'Biomod/2011/TUM/TNT/LabbookA';
 var redirPage = '/wiki/Special:Redir/'+wikiPage;
 var fullDates = new Array('08/11/2011','08/17/2011','08/23/2011','08/24/2011','08/25/2011','08/29/2011','08/30/2011','09/01/2011','09/02/2011','09/06/2011','09/12/2011','09/13/2011','09/14/2011','09/15/2011','09/16/2011','09/19/2011','09/20/2011','09/21/2011','09/27/2011','09/28/2011','09/29/2011','09/30/2011','10/05/2011','10/06/2011','10/07/2011','10/10/2011','10/12/2011','10/13/2011','10/14/2011','10/17/2011','10/18/2011','10/19/2011','10/20/2011','10/21/2011','10/26/2011','10/27/2011','10/28/2011','10/29/2011');
 callncal1.setDateFormat('yyyy/MM/dd');
 callncal1.setCssPrefix('OWWNB');
 callncal1.setReadOnly('N');
 callncal1.setTodayText('');
 callncal1.setUrlPrefix(redirPage);
 for(i = 0; i < fullDates.length; i++)callncal1.addFilledDates(fullDates[i]);
 callncal1.showCalendar('lncal1');
 callncal1.showYearNavigation('lncal1');

} </script> <script type="text/javascript">addOnloadHook( lnCalendar )</script> <script type="text/javascript">function CalendarPageConfirmCreate(date, url){var answer = confirm("Create entry for "+date+"?");if (answer){window.location = url;}}</script> <script type="text/javascript" src="/skins/common/ajax.js?164"></script> <script type="text/javascript" src="/ext/AjaxShowEditors/AjaxShowEditors.js"></script> <script type="text/javascript" src="/skins/common/ajaxwatch.js?164"></script> <script type="text/javascript" src="/skins/common/mwsuggest.js?164"></script> <script type="text/javascript" src="/index.php?title=-&amp;action=raw&amp;smaxage=0&amp;gen=js&amp;useskin=monobook"><!-- site js --></script> <style type="text/css">/*<![CDATA[*/ @import "/index.php?title=MediaWiki:Common.css&usemsgcache=yes&action=raw&ctype=text/css&smaxage=18000"; @import "/index.php?title=MediaWiki:Monobook.css&usemsgcache=yes&action=raw&ctype=text/css&smaxage=18000"; @import "/index.php?title=-&action=raw&gen=css&maxage=18000&smaxage=0&ts=20111012100110&useskin=monobook"; @import "/index.php?title=User:Alexander_Hipp/monobook.css&action=raw&ctype=text/css"; /*]]>*/</style> <script type="text/javascript" src="/index.php?title=User:Alexander_Hipp/monobook.js&amp;action=raw&amp;ctype=text/javascript"></script> </head>

</html>

<html>


<script type="text/javascript"> function SiteSearch(curobj){ var qualifier=; if (curobj.qualifier.value!=) qualifier=' +' + curobj.qualifier.value; if (curobj.search.value==){ return false; }else{ curobj.search.value = curobj.search.value + ' site:http://openwetware.org/wiki/Biomod/2011/TUM/TNT/LabbookA/2011' + qualifier; return true; } } </script>

11th Aug 2011

<html><img src="/images/9/94/Report.png" border="0" /></html> Main project page|12px
Next entry <html><img src="/images/5/5c/Resultset_next.png" border="0" /></html>

<html> </td> </tr> <tr> <td colspan="2"> </html>

Measured absorption and emission spectra of Atto 550 and Atto 647N together with DNA binders

100nM Atto 550 ddCTP resp.100nM Atto 647N dUTP were analyzed
DNA binders were added in a concentration according to 10 times their KD for DNA binding

  • Hoechst 33258: KD = 2.2nM
  • DAPI: KD = 1.8nM
  • Spermine: KD = 4.8µM
  • Ethidium bromide: KD = 12µM
  • Methyl green: KD = 2.2nM


buffer: 0.5x TBE, 11mM MgCl2
sample volume: 100µl
room temperature
slit width: 5nm

Atto 550:

  • excitation at 500nm and detection at 520-700nm
  • excitation at 450-600nm and detection at 610nm

Atto647N:

  • excitation at 600nm and detection at 610-800nm
  • excitation at 500-680nm and detection at 690nm


Fig.1: Excitation and emission spectra of Atto 550 ddCTP resp. Atto 647N dUTP with and without different DNA binders
Atto dyes: 100 nM, DNA binders were added in a concentration according to 10x their KD (see references), i.e.: Hoechst 33258: 22 nM, DAPI: 18 nM, spermine: 48 µM, methyl green: 22 nM, ethidium bromide: 120 µM
EtBr without Atto 550 ddCTP refers to a spectrum with only 120 µM ethidium bromide, while Atto 550 ddCTP corrected for EtBr is the difference spectrum between ethidium bromide and EtBr without Atto 550 ddCTP
buffer: 0.5x TBE, 11 mM MgCl2; slit width: 5 nm; room temperature

Methyl green seems to interfere with absorption of Atto 550 and fluorescence of Atto647N. Ethidium bromide displays absorption and emission at similar wavelengths as Atto 550, but the spectra are additive, so the photophysical properties of Atto 550 are not altered by the presence of ethidium bromide. All other tested DNA binders do not affect Atto 550 as well.


Retrieved from "https://openwetware.org/mediawiki/index.php?title=Biomod/2011/TUM/TNT/LabbookA/2011/08/11&oldid=555113"