Team:Warsaw/RBSmeasuremen/Results

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<div class="note">RBS Measurement Results</div><br />
<div class="note">RBS Measurement Results</div><br />
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<div align="center"><img src="https://static.igem.org/mediawiki/2011/f/f2/Tabelka.png" alt="ERROR" /></div>
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<div align="justify">As you can see below there are significant differences in RBS strength relative to B0034 between various fluorescent proteins. This is probably caused by influence of protein coding sequence on mRNA fold so different proteins will always have different expression levels from the same RBS and promoter. Differences reach 60% so you cannot predict expression level of your favorite protein basing on measurements with GFP.<br />
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In order to ensure that every protein will behave the same way with given expression driving part we need new approach. We need to deal with mRNA fold so we also need to get rid of different protein beginnings. One of solutions are our <a href="https://2011.igem.org/Team:Warsaw/ExpressionAdaptors">expression adapters.</a>
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The other approach would be to improve expression strength prediction basing on existing measurements.<ul>
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<li>It would require creation of a database of measurements of each RBS with various proteins.</li>
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<li> The protein N terminal parts (e.g. first 10 aa) could be compared using blast against database of N-terminal sequences of proteins measured with particular RBS. </li>
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<li>The best blast hit could be used to predict expression strength along with computational supporting tools e.g. RBS designer or RBS calculator </li></ul>
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Unfortunately creating such database is currently not possible during summer project. So far we could tray predicting expression of proteins with similar  N-terminal sequence to measured 5 fluorescent proteins.
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<br>
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Anyway, have a look at our results!
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<div class="note">Graphical representation of measurement results</div><br />
<div class="note">Graphical representation of measurement results</div><br />
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<div align="center"><img src="https://static.igem.org/mediawiki/2011/c/c6/RysB0031.png" alt="ERROR" /></div><br />
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<div align="center"><img src="https://static.igem.org/mediawiki/2011/7/7b/RysB0032%27.png" /></div><br />
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<div align="center"><img src="https://static.igem.org/mediawiki/2011/0/0d/RysB0033.png" alt="ERROR" /></div><br />
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<hr /><br />
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<div class="note">XFP expression driven by different RBS parts in numbers</div><br />
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<div align="center"><img src="https://static.igem.org/mediawiki/2011/f/f2/Tabelka.png" alt="ERROR"  /></div><br />
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Latest revision as of 22:34, 21 September 2011

Example Tabs


RBS Measurement Results

As you can see below there are significant differences in RBS strength relative to B0034 between various fluorescent proteins. This is probably caused by influence of protein coding sequence on mRNA fold so different proteins will always have different expression levels from the same RBS and promoter. Differences reach 60% so you cannot predict expression level of your favorite protein basing on measurements with GFP.
In order to ensure that every protein will behave the same way with given expression driving part we need new approach. We need to deal with mRNA fold so we also need to get rid of different protein beginnings. One of solutions are our expression adapters.

The other approach would be to improve expression strength prediction basing on existing measurements.
  • It would require creation of a database of measurements of each RBS with various proteins.
  • The protein N terminal parts (e.g. first 10 aa) could be compared using blast against database of N-terminal sequences of proteins measured with particular RBS.
  • The best blast hit could be used to predict expression strength along with computational supporting tools e.g. RBS designer or RBS calculator
Unfortunately creating such database is currently not possible during summer project. So far we could tray predicting expression of proteins with similar N-terminal sequence to measured 5 fluorescent proteins.
Anyway, have a look at our results!


Graphical representation of measurement results

ERROR




ERROR


XFP expression driven by different RBS parts in numbers

ERROR

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