Biomod/2011/TUM/TNT/Results

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<h1>Survey of results</h1>
<h1>Survey of results</h1>
We successfully designed a structure that folds properly with high yields [http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Results#Folding_.26_Purification (link)] and is suitable for observing the structural deformations. Comprehensive TEM analysis yielded insights into global structural deformations and allowed for statistical evaluation of angle and length distributions dependent on DNA binder concentrations [http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Results#TEM_Image_Analysis (link)]. Our structure could be labeled with fluorescent dyes and a huge variety of different approaches to fluorescence measurements was tested. In single molecule measurements FRET events could be observed. [http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Results#Fluorescence_Measurements (link)]. Based on these experimental data and also our structure simulations and calculations, we gained new insights into the structural properties of DNA origamis especially with regards to binding of small molecules [http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Results#Discussion (link)].  
We successfully designed a structure that folds properly with high yields [http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Results#Folding_.26_Purification (link)] and is suitable for observing the structural deformations. Comprehensive TEM analysis yielded insights into global structural deformations and allowed for statistical evaluation of angle and length distributions dependent on DNA binder concentrations [http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Results#TEM_Image_Analysis (link)]. Our structure could be labeled with fluorescent dyes and a huge variety of different approaches to fluorescence measurements was tested. In single molecule measurements FRET events could be observed. [http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Results#Fluorescence_Measurements (link)]. Based on these experimental data and also our structure simulations and calculations, we gained new insights into the structural properties of DNA origamis especially with regards to binding of small molecules [http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Results#Discussion (link)].  
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<h1> Folding & Purification </h1>
<h1> Folding & Purification </h1>
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<left><font size=1>'''Table 1: '''</font>
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<left><font size=1>Table 1: </font>
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<table cellspacing="0" cellpadding="6" align="center">
<tr bgcolor="#f5f5f5" >
<tr bgcolor="#f5f5f5" >
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<td><b></b></td><td><b>Number</b></td><td><b>Mean</b></td></td><td><b>Variance</b></td></td><td><b>SEM</b></td></td>
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<td><b></b></td><td><b>Number of particles</b></td><td><b>Mean angle [degree]</b></td></td><td><b>Variance</b></td></td><td><b>Standard error of the means</b></td></td>
</tr>
</tr>
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<tr bgcolor="#f5f5f5">
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<td>ctrl</td><td>715</td><td>9.312</td><td>4.830</td><td>0.180642978</td>
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<td>negative control</td><td>715</td><td>9.3</td><td>4.8</td><td>0.18</td>
</tr>
</tr>
<tr bgcolor="#f5f5f5">
<tr bgcolor="#f5f5f5">
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<td>ctrl pretwisted</td><td>424</td><td>21.119</td><td>8.161</td><td>0.396347765</td>
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<td>positive control (pretwisted)</td><td>424</td><td>21.1</td><td>8.2</td><td>0.40</td>
</tr>
</tr>
<tr bgcolor="#f5f5f5">
<tr bgcolor="#f5f5f5">
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<td>Spermine 0.42 µM</td><td>1019</td><td>8.864</td><td>4.793</td><td>0.150157669</td>
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<td>Spermine 0.42 µM</td><td>1019</td><td>8.9</td><td>4.8</td><td>0.15</td>
</tr>
</tr>
<tr bgcolor="#f5f5f5">
<tr bgcolor="#f5f5f5">
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<td>Spermine 1.34 µM</td><td>1809</td><td>9.663</td> <td>5.759</td><td>0.1354099</td>
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<td>Spermine 1.34 µM</td><td>1809</td><td>9.7</td> <td>5.8</td><td>0.14</td>
</tr>
</tr>
<tr bgcolor="#f5f5f5">
<tr bgcolor="#f5f5f5">
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<td>EtBr 0.69 µM</td><td>156</td><td>9.169</td> <td>5.036</td><td>0.403186678</td>
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<td>Ethidium bromide 0.69 µM</td><td>156</td><td>9.2</td> <td>5.0</td><td>0.40</td>
</tr>
</tr>
<tr bgcolor="#f5f5f5">
<tr bgcolor="#f5f5f5">
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<td>EtBr 0.74 µM</td><td>472</td><td>11.059</td> <td>5.577</td><td>0.256697629</td>
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<td>Ethidium bromide 0.74 µM</td><td>472</td><td>11.1</td> <td>5.6</td><td>0.26</td>
</tr>
</tr>
<tr bgcolor="#f5f5f5">
<tr bgcolor="#f5f5f5">
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<td>EtBr 2.27 µM</td><td>223</td><td>10.877</td> <td>5.531</td><td>0.370363066</td>
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<td>Ethidium bromide 2.27 µM</td><td>223</td><td>10.9</td> <td>5.5</td><td>0.37</td>
</tr>
</tr>
<tr bgcolor="#f5f5f5">
<tr bgcolor="#f5f5f5">
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<td>EtBr 2.4 µM</td><td>431</td><td>7.474</td> <td>7.839</td><td>0.377567259</td>
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<td>Ethidium bromide 2.4 µM</td><td>431</td><td>7.5</td> <td>7.8</td><td>0.38</td>
</tr>
</tr>
<tr bgcolor="#f5f5f5">
<tr bgcolor="#f5f5f5">
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<td>DAPI 432 nM</td><td>375</td><td>6.0277</td> <td>5.3736</td><td>0.277491511</td>
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<td>DAPI 432 nM</td><td>375</td><td>6.0</td> <td>5.4</td><td>0.28</td>
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<td>DAPI 144 nM</td><td>325</td><td>7.5568</td> <td>4.1349</td><td>0.229362984</td>
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<td>DAPI 144 nM</td><td>325</td><td>7.6</td> <td>4.1</td><td>0.23</td>
</tr>
</tr>
</table>
</table>

Revision as of 20:51, 2 November 2011

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