http://2009.igem.org/wiki/index.php?title=Team:Minnesota/Project&feed=atom&action=historyTeam:Minnesota/Project - Revision history2024-03-29T11:28:31ZRevision history for this page on the wikiMediaWiki 1.16.5http://2009.igem.org/wiki/index.php?title=Team:Minnesota/Project&diff=131726&oldid=prevYiannis at 18:33, 20 October 20092009-10-20T18:33:45Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h1>The Project</h1></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h1>The Project</h1></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">Although, we will only be judged for the software tools we have developed, we have also experimentally constructed, built and tested BioBricks that function as logical AND gates. The most important aspect of our work is that we combined simulations and experiments.</ins></div></td></tr>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2> SynBioSS Designer (https://2009.igem.org/Team:Minnesota/Designer) </h2></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2> SynBioSS Designer (https://2009.igem.org/Team:Minnesota/Designer) </h2></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2>AND Gates</h2></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2>AND Gates</h2></div></td></tr>
</table>Yiannishttp://2009.igem.org/wiki/index.php?title=Team:Minnesota/Project&diff=57208&oldid=prevMontalbano at 04:34, 1 September 20092009-09-01T04:34:21Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The tetO2 operator site is a 19bp palindromic DNA sequence which is tightly bound by the dimer TetR, repressing the expression of downstream genes in the absence of an inducer. Helbl and Hillen have documented several mutations of tetO2 and the binding affinities of wild-type and mutant TetR for them. Since TetR is a dimer which binds both sides of the palindrome in the same way, each of these mutations were also made at the same location on both sides of the palindrome. </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The tetO2 operator site is a 19bp palindromic DNA sequence which is tightly bound by the dimer TetR, repressing the expression of downstream genes in the absence of an inducer. Helbl and Hillen have documented several mutations of tetO2 and the binding affinities of wild-type and mutant TetR for them. Since TetR is a dimer which binds both sides of the palindrome in the same way, each of these mutations were also made at the same location on both sides of the palindrome. </div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[[Image:TetO2.tiff|frame]]</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>[[Image:TetO2.tiff|frame]]</div></td></tr>
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<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><h2>Methods</h2></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><h3>Preparing Competent Cells</h3></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><ol></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><li>Grow a streak isolation plate overnight for TOP10 and DH5αPro cells.</li></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><li>Inoculate single colony from the freshly streaked plate to 2 ml LB media.</li></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><li>Grow culture for 16 hours at 37 °C and 220 RPM</li></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><li>Then inoculate 80 ml of media with 800 µl of the culture and grow for 2 hours at 37 °C and 220 RPM.</li></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><li>Shake the culture in an ice bath for 10 minutes while chilling 4 50 ml tubes.</li></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><li>Transfer the culture into 2 50 ml tubes for both TOP10 and DH5αPro</li></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><li>Spin the culture at 5000 RPM and 4 °C (maintain this temperature as much as possible at this point). Throw the supernatant.</li></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><li>Add 20 ml of chilled 100mM CaCl2 to the tube and re-suspend by vortexing</li></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><li>Incubate on ice for 40 minutes</li></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><li>Spin culture at 4500 RPM and 4 °C for 10 minutes. Throw the supernatant.</li></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><li>Add 3.5 ml of 100 mM CaCl2 and 1.5 ml of 50% Glycerol and gently re-suspend by tapping the tube (do not vortex). Pre-chill micro centrifuge tubes.</li></del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;"><li>Transfer 200 µl of the culture to the micro centrifuge tubes, snap freeze and store at -80 °C.</li></del></div></td><td colspan="2"> </td></tr>
</table>Montalbanohttp://2009.igem.org/wiki/index.php?title=Team:Minnesota/Project&diff=55696&oldid=prevYiannis at 17:11, 28 August 20092009-08-28T17:11:20Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h1>The Project</h1></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h1>The Project</h1></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><h2> SynBioSS Designer https://2009.igem.org/Team:Minnesota/Designer </h2></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><h2> SynBioSS Designer <ins class="diffchange diffchange-inline">(</ins>https://2009.igem.org/Team:Minnesota/Designer<ins class="diffchange diffchange-inline">) </ins></h2></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2>AND Gates</h2></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2>AND Gates</h2></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h3> How they work</h3></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h3> How they work</h3></div></td></tr>
</table>Yiannishttp://2009.igem.org/wiki/index.php?title=Team:Minnesota/Project&diff=55695&oldid=prevYiannis at 17:10, 28 August 20092009-08-28T17:10:40Z<p></p>
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<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"><h2> SynBioSS Designer https://2009.igem.org/Team:Minnesota/Designer </h2></ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2>AND Gates</h2></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2>AND Gates</h2></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h3> How they work</h3></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h3> How they work</h3></div></td></tr>
</table>Yiannishttp://2009.igem.org/wiki/index.php?title=Team:Minnesota/Project&diff=41007&oldid=prevLinkri at 19:23, 7 August 20092009-08-07T19:23:54Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|}</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|}</div></td></tr>
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<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">{| style="color:gold;background-color:#800000;" cellpadding="3" cellspacing="1" border="1" bordercolor="#fff" width="90%" align="center"</ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>{| style="color:gold;background-color:#800000;" cellpadding="3" cellspacing="1" border="1" bordercolor="#fff" width="90%" align="center"</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>{| style="color:gold;background-color:#800000;" cellpadding="3" cellspacing="1" border="1" bordercolor="#fff" width="90%" align="center"</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>!align="center"|[[Team:Minnesota|<font color="gold">Home</font>]]</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>!align="center"|[[Team:Minnesota|<font color="gold">Home</font>]]</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>!align="center"|[[Team:Minnesota/Team|<font color="gold">The Team</font>]]</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>!align="center"|[[Team:Minnesota/Team|<font color="gold">The Team</font>]]</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>!align="center"|[[Team:Minnesota/Project|<font color="gold">The Project</font>]]</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>!align="center"|[[Team:Minnesota/Project|<font color="gold">The Project</font>]]</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;">!align="center"|[[Team:Minnesota/Parts|<font color="gold">Submitted Parts</font>]]</del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;">!align="center"|[[Team:Minnesota/Modeling|<font color="gold">Modeling</font>]]</del></div></td><td colspan="2"> </td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>!align="center"|[[Team:Minnesota/Designer|<font color="gold">SynBioSS Designer</font>]]</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>!align="center"|[[Team:Minnesota/Designer|<font color="gold">SynBioSS Designer</font>]]</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>!align="center"|[[Team:Minnesota/<del class="diffchange diffchange-inline">Parts Characterization</del>|<font color="gold"><del class="diffchange diffchange-inline">Parts Characterization</del></font>]]</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>!align="center"|[[Team:Minnesota/<ins class="diffchange diffchange-inline">Modeling</ins>|<font color="gold"><ins class="diffchange diffchange-inline">Modeling</ins></font>]]</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>!align="center"|[[Team:Minnesota/Notebook|<font color="gold"><del class="diffchange diffchange-inline">Experiments and Calendar</del></font>]]</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>!align="center"|[[Team:Minnesota/Notebook|<font color="gold"><ins class="diffchange diffchange-inline">Experimental</ins></font>]]</div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div> </div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">!align="center"|[[Team:Minnesota/Parts Characterization|<font color="gold">Competition Requirements</font>]]</ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|}</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|}</div></td></tr>
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</table>Linkrihttp://2009.igem.org/wiki/index.php?title=Team:Minnesota/Project&diff=40992&oldid=prevLinkri at 18:53, 7 August 20092009-08-07T18:53:56Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2> tetO2 mutants </h2></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2> tetO2 mutants </h2></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The tetO2 operator site is a 19bp palindromic DNA sequence which is tightly bound by the dimer TetR, repressing the expression of downstream genes in the absence of an inducer. Helbl and Hillen have documented several mutations of tetO2 and the binding affinities of wild-type and mutant TetR for them. Since TetR is a dimer which binds both sides of the palindrome in the same way, each of these mutations were also made at the same location on both sides of the palindrome. </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The tetO2 operator site is a 19bp palindromic DNA sequence which is tightly bound by the dimer TetR, repressing the expression of downstream genes in the absence of an inducer. Helbl and Hillen have documented several mutations of tetO2 and the binding affinities of wild-type and mutant TetR for them. Since TetR is a dimer which binds both sides of the palindrome in the same way, each of these mutations were also made at the same location on both sides of the palindrome. </div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>[[Image:TetO2.tiff]]</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>[[Image:TetO2.tiff<ins class="diffchange diffchange-inline">|frame</ins>]]</div></td></tr>
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</table>Linkrihttp://2009.igem.org/wiki/index.php?title=Team:Minnesota/Project&diff=40989&oldid=prevLinkri at 18:50, 7 August 20092009-08-07T18:50:31Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2> tetO2 mutants </h2></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2> tetO2 mutants </h2></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The tetO2 operator site is a 19bp palindromic DNA sequence which is tightly bound by the dimer TetR, repressing the expression of downstream genes in the absence of an inducer. Helbl and Hillen have documented several mutations of tetO2 and the binding affinities of wild-type and mutant TetR for them. Since TetR is a dimer which binds both sides of the palindrome in the same way, each of these mutations were also made at the same location on both sides of the palindrome. </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>The tetO2 operator site is a 19bp palindromic DNA sequence which is tightly bound by the dimer TetR, repressing the expression of downstream genes in the absence of an inducer. Helbl and Hillen have documented several mutations of tetO2 and the binding affinities of wild-type and mutant TetR for them. Since TetR is a dimer which binds both sides of the palindrome in the same way, each of these mutations were also made at the same location on both sides of the palindrome. </div></td></tr>
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</table>Linkrihttp://2009.igem.org/wiki/index.php?title=Team:Minnesota/Project&diff=40986&oldid=prevLinkri at 18:46, 7 August 20092009-08-07T18:46:48Z<p></p>
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<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2> tetO2 mutants </h2></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2> tetO2 mutants </h2></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div> </div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">The tetO2 operator site is a 19bp palindromic DNA sequence which is tightly bound by the dimer TetR, repressing the expression of downstream genes in the absence of an inducer. Helbl and Hillen have documented several mutations of tetO2 and the binding affinities of wild-type and mutant TetR for them. Since TetR is a dimer which binds both sides of the palindrome in the same way, each of these mutations were also made at the same location on both sides of the palindrome. </ins></div></td></tr>
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</table>Linkrihttp://2009.igem.org/wiki/index.php?title=Team:Minnesota/Project&diff=40984&oldid=prevLinkri at 18:34, 7 August 20092009-08-07T18:34:28Z<p></p>
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</table>Linkrihttp://2009.igem.org/wiki/index.php?title=Team:Minnesota/Project&diff=40983&oldid=prevLinkri at 18:33, 7 August 20092009-08-07T18:33:55Z<p></p>
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</table>Linkri