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Team:Berkeley Software/Eugene Results
From 2009.igem.org
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<td>'''Content:''' | <td>'''Content:''' | ||
| - | <li>[[Team:Berkeley_Software/Eugene|Intro]] | + | <li> [[Team:Berkeley_Software/Eugene|Intro]] |
| - | <li>[[Team:Berkeley_Software/Eugene#Language_Definition|Language Definition]] | + | <li> [[Team:Berkeley_Software/Eugene#Language_Definition|Language Definition]] |
| - | <li>[[Team:Berkeley_Software/Eugene#Examples|Examples]] | + | <li> [[Team:Berkeley_Software/Eugene#Examples|Examples]] |
<li>[[Team:Berkeley_Software/Eugene_Implementation#Implementation| Implementation]] | <li>[[Team:Berkeley_Software/Eugene_Implementation#Implementation| Implementation]] | ||
| - | <li>[[#Results|Results]] | + | <li> [[#Results|Results]] |
| - | <li>[[#Conclusions|Conclusions]]</td> | + | <li> [[#Conclusions|Conclusions]]</td> |
<td>          </td> | <td>          </td> | ||
<td><center>[[Image:Eugene.png|112px]]</center></td> | <td><center>[[Image:Eugene.png|112px]]</center></td> | ||
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<td align="center">158:1</td> | <td align="center">158:1</td> | ||
<td align="center">94</td> | <td align="center">94</td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td align="center">[http://partsregistry.org/Part:BBa_K112133 BBa_K112133]</td> | ||
| + | <td align="center">iGEM08_UC_Berkeley (2008-10-30)</td> | ||
| + | <td align="center">Xis Int temperature sensitive expression cassette</td> | ||
| + | <td align="center">31</td> | ||
| + | <td align="center">11</td> | ||
| + | <td align="center">1</td> | ||
| + | <td align="center">17</td> | ||
| + | <td align="center">3</td> | ||
| + | <td align="center">82</td> | ||
| + | <td align="center">128:1</td> | ||
| + | <td align="center">94</td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td align="center">[http://partsregistry.org/Part:BBa_E7104 BBa_E7104]</td> | ||
| + | <td align="center">Endy Lab (2005-07-04)</td> | ||
| + | <td align="center">T7 Consensus Promoter Sequence</td> | ||
| + | <td align="center">10</td> | ||
| + | <td align="center">4</td> | ||
| + | <td align="center">0</td> | ||
| + | <td align="center">16</td> | ||
| + | <td align="center">3</td> | ||
| + | <td align="center">81</td> | ||
| + | <td align="center">68:1</td> | ||
| + | <td align="center">94</td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td align="center">[http://partsregistry.org/Part:BBa_K118021 BBa_K118021]</td> | ||
| + | <td align="center">iGEM08_Edinburgh (2008-10-07)</td> | ||
| + | <td align="center">T7 Consensus Promoter Sequence</td> | ||
| + | <td align="center">6</td> | ||
| + | <td align="center">2</td> | ||
| + | <td align="center">0</td> | ||
| + | <td align="center">15</td> | ||
| + | <td align="center">3</td> | ||
| + | <td align="center">80</td> | ||
| + | <td align="center">72:1</td> | ||
| + | <td align="center">93</td> | ||
</tr> | </tr> | ||
</table> | </table> | ||
Revision as of 00:33, 19 October 2009
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Results
Table 1 is an examination of actual experimentally created devices from a variety of sources. The first two devices were created in the summer of 2008 in J.C Anderson’s lab at UC Berkeley for the International Genetically Engineering Machine Competition. These can be found in MIT’s registry of standard biological parts. The third device is from Drew Endy’s lab at Stanford. The fourth part is from Edinburgh’s 2008 iGEM team. The fifth part is from Tom Knight’s lab at MIT. The description of these devices as well as their registry id is provided. In addition we detail the number of properties, parts, and devices used by Eugene to specify them. For running the examples a MacBook Pro was used with a 2.4 GHz processor speed and 2 GB of memory.
Table 1: Examination of Experimental Designs Specified Using Eugene
| Device | Group | Description | Number of | Lines of Code in program | Percentage change Lines | Ratio | Compilation | |||
|---|---|---|---|---|---|---|---|---|---|---|
| Property Values | Parts | Devices | Total | Main File | Total to Main File | Sequence bp:Lines | Time(ms) | |||
| [http://partsregistry.org/Part:BBa_K112809 BBa_K112809] | iGEM08_UC_Berkeley (2008-11-03) | T4 Lysis Device with Pbad | 21 | 7 | 0 | 19 | 3 | 84 | 158:1 | 94 |
| [http://partsregistry.org/Part:BBa_K112133 BBa_K112133] | iGEM08_UC_Berkeley (2008-10-30) | Xis Int temperature sensitive expression cassette | 31 | 11 | 1 | 17 | 3 | 82 | 128:1 | 94 |
| [http://partsregistry.org/Part:BBa_E7104 BBa_E7104] | Endy Lab (2005-07-04) | T7 Consensus Promoter Sequence | 10 | 4 | 0 | 16 | 3 | 81 | 68:1 | 94 |
| [http://partsregistry.org/Part:BBa_K118021 BBa_K118021] | iGEM08_Edinburgh (2008-10-07) | T7 Consensus Promoter Sequence | 6 | 2 | 0 | 15 | 3 | 80 | 72:1 | 93 |
