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I am reaching the end of my PhD on algal molecular biology and have found the CUO extremely useful. To date my use of it has fallen into three categories. My initial use of it was for the assisted design or redesign of several recombinant genes for expression in the Chlamydomonas reinhardtii chloroplast, a task which it has excelled at. Further to this I have used the program extensively for the analysis of previously expressed genes in the C. reinhardtii chloroplast to evaluate trends in expressing and non-expressing sub-sets. The CUO has also proven to be a very powerful tool for the study of the codon and codon pair usage in genes native to the C. reinhardtii chloroplast, a task I would have been unable to complete without this program.
Team:UCLondon/Templates/bottom-contentv5
From 2012e.igem.org
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} | } | ||
.right { | .right { | ||
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.text { width: 20% !important; float:left; } | .text { width: 20% !important; float:left; } | ||
| - | .p-img { width: | + | .p-img { width: 25% !important; float:left; padding-top:0; padding-right: 12px;} |
.text p { | .text p { | ||
height:150px; | height:150px; | ||
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text-indent: -9999px; | text-indent: -9999px; | ||
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.js #slideshow .slides-nav li.on a { | .js #slideshow .slides-nav li.on a { | ||
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<div class="footer-box left"> | <div class="footer-box left"> | ||
<h3>Latest News</h3> | <h3>Latest News</h3> | ||
| - | <ul> | + | <ul style="padding-top:10px;"> |
<li><a href="http://codonusageoptimizer.org/download/">CUO 0.92 released</a></li> | <li><a href="http://codonusageoptimizer.org/download/">CUO 0.92 released</a></li> | ||
<li><a href="http://www.ucl.ac.uk/news/news-articles/1209/10092012-QS">UCL in 4th place in world university rankings</a></li> | <li><a href="http://www.ucl.ac.uk/news/news-articles/1209/10092012-QS">UCL in 4th place in world university rankings</a></li> | ||
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<!--<h2>Slide one</h2>--> | <!--<h2>Slide one</h2>--> | ||
<p> | <p> | ||
| - | <div class="p-img"><img src="https://dl.dropbox.com/u/45600819/igemewiki%20team%20photos/advisors/c.jpg" width=" | + | <div class="p-img"><img src="https://dl.dropbox.com/u/45600819/igemewiki%20team%20photos/advisors/c.jpg" width="100"/> |
| - | <div class="test-author" style="margin:auto; width:95%; text-align:center;">Henry Taunt | + | <div class="test-author" style="margin:auto; width:95%; text-align:center;">Henry Taunt<br><div style="font-size:8pt;">PhD Candidate</div></div> |
</div> | </div> | ||
<div class="text" > | <div class="text" > | ||
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<!--<h2>Slide two</h2>--> | <!--<h2>Slide two</h2>--> | ||
<p> | <p> | ||
| - | <div class="p-img"><img src="https://dl.dropbox.com/u/45600819/igemewiki%20team%20photos/acknowledgements/r.jpg" width=" | + | <div class="p-img"><img src="https://dl.dropbox.com/u/45600819/igemewiki%20team%20photos/acknowledgements/r.jpg" width="100"/> |
<div class="test-author" style="margin:auto; width:95%; text-align:center;">Dr Rosie Young</div> | <div class="test-author" style="margin:auto; width:95%; text-align:center;">Dr Rosie Young</div> | ||
</div> | </div> | ||
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<h3>Sponsors</h3> | <h3>Sponsors</h3> | ||
<div> | <div> | ||
| - | <ul class="sponsor-list"> | + | <ul class="sponsor-list" style="padding-top:8px;"> |
| - | <a href="http://www.clcbio.com" class="sponsor-logo"><li><img src="http://www.clcbio.com/wp-content/themes/clcbio-wordpress/images/clcbio_logo_web.png" width=" | + | <a href="http://www.clcbio.com" class="sponsor-logo"><li><img src="http://www.clcbio.com/wp-content/themes/clcbio-wordpress/images/clcbio_logo_web.png" width="100" style="padding-top:17px;"/></li></a> |
| - | <a href="http://www.engineering.ucl.ac.uk" class="sponsor-logo"><li><img src=" | + | <a href="http://www.engineering.ucl.ac.uk" class="sponsor-logo"><li><img src="https://dl.dropbox.com/u/3703109/igeme/UCL_Engineering.png" width="160" style="padding-top:16px;"/></li></a> |
| + | <!--<a href="#" class="sponsor-logo nothing" onclick="sponsoring()"><li><p style="margin-top:32px; color:grey;">click to sponsor!</p></li></a> | ||
<a href="#" class="sponsor-logo nothing" onclick="sponsoring()"><li><p style="margin-top:32px; color:grey;">click to sponsor!</p></li></a> | <a href="#" class="sponsor-logo nothing" onclick="sponsoring()"><li><p style="margin-top:32px; color:grey;">click to sponsor!</p></li></a> | ||
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<a href="#" class="sponsor-logo nothing" onclick="sponsoring()"><li>click to sponsor!</li></a> | <a href="#" class="sponsor-logo nothing" onclick="sponsoring()"><li>click to sponsor!</li></a> | ||
<a href="#" class="sponsor-logo nothing" onclick="sponsoring()"><li>click to sponsor!</li></a> | <a href="#" class="sponsor-logo nothing" onclick="sponsoring()"><li>click to sponsor!</li></a> | ||
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</ul> | </ul> | ||
</div> | </div> | ||
| + | <div style="margin:auto; width:116px; list-type:none !important; list-style-type: none;"><a href="#" class="nothing" style="color:grey;" onclick="sponsoring()"><li style="padding-left:14px;">click to sponsor!</li></a></div> | ||
</div><!-- .footer-box right --> | </div><!-- .footer-box right --> | ||
Latest revision as of 16:22, 24 October 2012
Testimonials
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I have used CUO to optimize several gene and tag sequences for expression in the Chlamydomonas chloroplast. The advantage of this program lies in its integration of codon usage with codon pairing optimization, using data from highly expressed genes. The interface is professional, flexible and easy to navigate and the manual provides clear instructions. Whilst we are still gathering data, early indications are that the program performs very well in redesigning genes for optimal expression.
