Team:USTC CHINA/Modeling/DesignsofImmuneExperiments
From 2013.igem.org
(Difference between revisions)
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</ul></br> | </ul></br> | ||
The ranges of these factor is given as follows:</li> | The ranges of these factor is given as follows:</li> | ||
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+ | <div align="center"> | ||
<table border="1" cellspacing="0" cellpadding="0"> | <table border="1" cellspacing="0" cellpadding="0"> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>Factor</p></td> | <td width="190" valign="top"><p>Factor</p></td> | ||
<td width="190" valign="top"><p>Level Values</p></td> | <td width="190" valign="top"><p>Level Values</p></td> | ||
</tr> | </tr> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>LTB</p></td> | <td width="190" valign="top"><p>LTB</p></td> | ||
<td width="190" valign="top"><p>-1 0 1</p></td> | <td width="190" valign="top"><p>-1 0 1</p></td> | ||
</tr> | </tr> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>KNFα </p></td> | <td width="190" valign="top"><p>KNFα </p></td> | ||
<td width="190" valign="top"><p>-1 0 1</p></td> | <td width="190" valign="top"><p>-1 0 1</p></td> | ||
</tr> | </tr> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>Reporter</p></td> | <td width="190" valign="top"><p>Reporter</p></td> | ||
<td width="190" valign="top"><p>-4 -3</p></td> | <td width="190" valign="top"><p>-4 -3</p></td> | ||
</tr> | </tr> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>Temperature/℃ </p></td> | <td width="190" valign="top"><p>Temperature/℃ </p></td> | ||
<td width="190" valign="top"><p>35.5 36 36.5 37 37.5</p></td> | <td width="190" valign="top"><p>35.5 36 36.5 37 37.5</p></td> | ||
</tr> | </tr> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>Time/h</p></td> | <td width="190" valign="top"><p>Time/h</p></td> | ||
<td width="190" valign="top"><p>4 5 6 7 </p></td> | <td width="190" valign="top"><p>4 5 6 7 </p></td> | ||
</tr> | </tr> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>Area/ </p></td> | <td width="190" valign="top"><p>Area/ </p></td> | ||
<td width="190" valign="top"><p>1 3 7 10</p></td> | <td width="190" valign="top"><p>1 3 7 10</p></td> | ||
</tr> | </tr> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>Concentration(the number of engineered bacteria per square centimeter )</p></td> | <td width="190" valign="top"><p>Concentration(the number of engineered bacteria per square centimeter )</p></td> | ||
<td width="190" valign="top"><p>7 8 9 </p></td> | <td width="190" valign="top"><p>7 8 9 </p></td> | ||
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</tr> | </tr> | ||
</table></br> | </table></br> | ||
+ | </div> | ||
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<h4>Note: </h4>The ranges of rates and concentration of engineered bacteria were too large, and thus we used the common logarithms instead of the original values. For example, the low level of LTB was -1, meaning the lowest rate of LTB to antigen was 0.1.</br> | <h4>Note: </h4>The ranges of rates and concentration of engineered bacteria were too large, and thus we used the common logarithms instead of the original values. For example, the low level of LTB was -1, meaning the lowest rate of LTB to antigen was 0.1.</br> | ||
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To some extent, all DOE methods are branches of Factorial Designs. The easiest subplot of Factorial Designs is Full Factorial Designs, meaning making a list of all combinations of all levels, which in fact does nothing to minimizing the runs. Surly the overall runs of Full Factorial Designs is larger than any other method, yet it does provide the most detailed information, so it is recommended when the factory does not care about money and time.</br> | To some extent, all DOE methods are branches of Factorial Designs. The easiest subplot of Factorial Designs is Full Factorial Designs, meaning making a list of all combinations of all levels, which in fact does nothing to minimizing the runs. Surly the overall runs of Full Factorial Designs is larger than any other method, yet it does provide the most detailed information, so it is recommended when the factory does not care about money and time.</br> | ||
Generally Full Factorial Design has nothing mathematically sophisticated, all required is to list the specific values of all factors without any limitation on levels, which grants us more flexibility and freedom. Here is our table of levels of factors:</p> | Generally Full Factorial Design has nothing mathematically sophisticated, all required is to list the specific values of all factors without any limitation on levels, which grants us more flexibility and freedom. Here is our table of levels of factors:</p> | ||
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+ | <div align="center"> | ||
<table border="1" cellspacing="0" cellpadding="0"> | <table border="1" cellspacing="0" cellpadding="0"> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>Factor</p></td> | <td width="190" valign="top"><p>Factor</p></td> | ||
<td width="190" valign="top"><p>Level Values</p></td> | <td width="190" valign="top"><p>Level Values</p></td> | ||
</tr> | </tr> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>LTB</p></td> | <td width="190" valign="top"><p>LTB</p></td> | ||
<td width="190" valign="top"><p>-1 0 1</p></td> | <td width="190" valign="top"><p>-1 0 1</p></td> | ||
</tr> | </tr> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>KNFα </p></td> | <td width="190" valign="top"><p>KNFα </p></td> | ||
<td width="190" valign="top"><p>-1 0 1</p></td> | <td width="190" valign="top"><p>-1 0 1</p></td> | ||
</tr> | </tr> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>Reporter</p></td> | <td width="190" valign="top"><p>Reporter</p></td> | ||
<td width="190" valign="top"><p>-4 -3</p></td> | <td width="190" valign="top"><p>-4 -3</p></td> | ||
</tr> | </tr> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>Temperature/℃ </p></td> | <td width="190" valign="top"><p>Temperature/℃ </p></td> | ||
<td width="190" valign="top"><p>35.5 36 36.5 37 37.5</p></td> | <td width="190" valign="top"><p>35.5 36 36.5 37 37.5</p></td> | ||
</tr> | </tr> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>Time/h</p></td> | <td width="190" valign="top"><p>Time/h</p></td> | ||
<td width="190" valign="top"><p>4 5 6 7 </p></td> | <td width="190" valign="top"><p>4 5 6 7 </p></td> | ||
</tr> | </tr> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>Area/ </p></td> | <td width="190" valign="top"><p>Area/ </p></td> | ||
<td width="190" valign="top"><p>1 3 7 10</p></td> | <td width="190" valign="top"><p>1 3 7 10</p></td> | ||
</tr> | </tr> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>Concentration(the number of engineered bacteria per square centimeter )</p></td> | <td width="190" valign="top"><p>Concentration(the number of engineered bacteria per square centimeter )</p></td> | ||
<td width="190" valign="top"><p>7 8 9 </p></td> | <td width="190" valign="top"><p>7 8 9 </p></td> | ||
</tr> | </tr> | ||
- | <tr> | + | <tr align="center"> |
<td width="190" valign="top"><p>Molecule Weight(K D)</p></td> | <td width="190" valign="top"><p>Molecule Weight(K D)</p></td> | ||
<td width="190" valign="top"><p>10 20 40 80</p></td> | <td width="190" valign="top"><p>10 20 40 80</p></td> | ||
</tr> | </tr> | ||
- | </table></br>And we got our first design, whose number of overall runs is 17820! </br> | + | </table> |
+ | </div> | ||
+ | |||
+ | </br>And we got our first design, whose number of overall runs is 17820! </br> | ||
<a href="https://static.igem.org/mediawiki/2013/2/22/Full_Factorial_Designs_17280runs.XLS">Full Factorial Designs 17280 runs</a></br> | <a href="https://static.igem.org/mediawiki/2013/2/22/Full_Factorial_Designs_17280runs.XLS">Full Factorial Designs 17280 runs</a></br> | ||
In reality we did not deem this level values table was detailed enough, but the number of runs was already enormous. Perhaps only the biggest pharmaceutical factory can afford this design.</br> | In reality we did not deem this level values table was detailed enough, but the number of runs was already enormous. Perhaps only the biggest pharmaceutical factory can afford this design.</br> |
Revision as of 20:28, 27 September 2013