Talk:CH391L/S12/Pattern Formation - Revision history

http://www.openwetware.org/index.php?title=Talk:CH391L/S12/Pattern_Formation&feed=atom&action=history Talk:CH391L/S12/Pattern Formation - Revision history 2013-05-23T01:51:28Z Revision history for this page on the wiki MediaWiki 1.13.2 http://www.openwetware.org/index.php?title=Talk:CH391L/S12/Pattern_Formation&diff=596919&oldid=prev Jeffrey E. Barrick at 17:57, 9 April 2012 2012-04-09T17:57:52Z

<p></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 17:57, 9 April 2012</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 14:</td> <td colspan="2" class="diff-lineno">Line 14:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 18:10, 7 April 2012 (EDT)''':Depends on the definition of useful. I certainly foresee this being an enabling technology. But I'm not sure how useful it will be in E.coli. The real biomedical applications might start to take place once systems like this are imported into mammalian cell culture. In terms of non-circular colony growth, yeah I bet this is possible. My guess is tricky though, if you're dealing with cell survival. I'm not sure the exact parameters you are thinking of (autonomous vs non-autonomous), but I bet you could do some fun stuff with light controlling cell growth.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 18:10, 7 April 2012 (EDT)''':Depends on the definition of useful. I certainly foresee this being an enabling technology. But I'm not sure how useful it will be in E.coli. The real biomedical applications might start to take place once systems like this are imported into mammalian cell culture. In terms of non-circular colony growth, yeah I bet this is possible. My guess is tricky though, if you're dealing with cell survival. I'm not sure the exact parameters you are thinking of (autonomous vs non-autonomous), but I bet you could do some fun stuff with light controlling cell growth.</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 11:54, 9 April 2012 (EDT)''':This paper[http://pubs.acs.org/doi/pdf/10.1021/ja105431h] is pretty cool. They use DNA to form extracellular matrix-like scaffolds. In which cells can do things based on the structural characteristics of the scaffold. And this is fully programmable because it is made of DNA.   </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 11:54, 9 April 2012 (EDT)''':This paper[http://pubs.acs.org/doi/pdf/10.1021/ja105431h] is pretty cool. They use DNA to form extracellular matrix-like scaffolds. In which cells can do things based on the structural characteristics of the scaffold. And this is fully programmable because it is made of DNA.   </div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>***'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 13:57, 9 April 2012 (EDT)''': I was thinking autonomous. Like, can you engineer a cell that forms dumbbell shaped colonies<del class="diffchange diffchange-inline">.</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>***'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 13:57, 9 April 2012 (EDT)''': I was thinking autonomous. Like, can you engineer a cell that forms dumbbell shaped colonies<ins class="diffchange diffchange-inline">?</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Ben Slater|Ben Slater]] 20:27, 8 April 2012 (EDT)''': Think it's possible to design a color bacterial photo system? As in, color output, not just input?</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Ben Slater|Ben Slater]] 20:27, 8 April 2012 (EDT)''': Think it's possible to design a color bacterial photo system? As in, color output, not just input?</div></td></tr>  </table>

Jeffrey E. Barrick http://www.openwetware.org/index.php?title=Talk:CH391L/S12/Pattern_Formation&diff=596918&oldid=prev Jeffrey E. Barrick at 17:57, 9 April 2012 2012-04-09T17:57:38Z

<p></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 17:57, 9 April 2012</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 14:</td> <td colspan="2" class="diff-lineno">Line 14:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 18:10, 7 April 2012 (EDT)''':Depends on the definition of useful. I certainly foresee this being an enabling technology. But I'm not sure how useful it will be in E.coli. The real biomedical applications might start to take place once systems like this are imported into mammalian cell culture. In terms of non-circular colony growth, yeah I bet this is possible. My guess is tricky though, if you're dealing with cell survival. I'm not sure the exact parameters you are thinking of (autonomous vs non-autonomous), but I bet you could do some fun stuff with light controlling cell growth.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 18:10, 7 April 2012 (EDT)''':Depends on the definition of useful. I certainly foresee this being an enabling technology. But I'm not sure how useful it will be in E.coli. The real biomedical applications might start to take place once systems like this are imported into mammalian cell culture. In terms of non-circular colony growth, yeah I bet this is possible. My guess is tricky though, if you're dealing with cell survival. I'm not sure the exact parameters you are thinking of (autonomous vs non-autonomous), but I bet you could do some fun stuff with light controlling cell growth.</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 11:54, 9 April 2012 (EDT)''':This paper[http://pubs.acs.org/doi/pdf/10.1021/ja105431h] is pretty cool. They use DNA to form extracellular matrix-like scaffolds. In which cells can do things based on the structural characteristics of the scaffold. And this is fully programmable because it is made of DNA.   </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 11:54, 9 April 2012 (EDT)''':This paper[http://pubs.acs.org/doi/pdf/10.1021/ja105431h] is pretty cool. They use DNA to form extracellular matrix-like scaffolds. In which cells can do things based on the structural characteristics of the scaffold. And this is fully programmable because it is made of DNA.   </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;">***'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 13:57, 9 April 2012 (EDT)''': I was thinking autonomous. Like, can you engineer a cell that forms dumbbell shaped colonies.</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Ben Slater|Ben Slater]] 20:27, 8 April 2012 (EDT)''': Think it's possible to design a color bacterial photo system? As in, color output, not just input?</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Ben Slater|Ben Slater]] 20:27, 8 April 2012 (EDT)''': Think it's possible to design a color bacterial photo system? As in, color output, not just input?</div></td></tr> <tr><td colspan="2" class="diff-lineno">Line 20:</td> <td colspan="2" class="diff-lineno">Line 21:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Adam Meyer|Adam Meyer]] 11:21, 9 April 2012 (EDT)''':It seems as though in all the cases listed, the pattern is specified by the investigator.  Are there systems in which the investigator sets up conditions and the organisms form an optimal pattern that fits those conditions?  In other words, the pattern is not known ''a priori'' but answers some question.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Adam Meyer|Adam Meyer]] 11:21, 9 April 2012 (EDT)''':It seems as though in all the cases listed, the pattern is specified by the investigator.  Are there systems in which the investigator sets up conditions and the organisms form an optimal pattern that fits those conditions?  In other words, the pattern is not known ''a priori'' but answers some question.</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 11:54, 9 April 2012 (EDT)''':This paper[http://www.sciencemag.org/content/327/5964/439.full.pdf] describes pattern formation where the ''program'' is natural to the organism, but the parameters are synthetic. In the paper, a mold is grown on a plate with strategically placed food sources that resemble the Tokyo rail system. The mold then creates the most efficient pathing between the food nodes. It is really surprising that the biological map created from this highly resembles the actual engineered routes.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 11:54, 9 April 2012 (EDT)''':This paper[http://www.sciencemag.org/content/327/5964/439.full.pdf] describes pattern formation where the ''program'' is natural to the organism, but the parameters are synthetic. In the paper, a mold is grown on a plate with strategically placed food sources that resemble the Tokyo rail system. The mold then creates the most efficient pathing between the food nodes. It is really surprising that the biological map created from this highly resembles the actual engineered routes.</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;">***'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 13:57, 9 April 2012 (EDT)''': That's a really fun paper.</ins></div></td></tr>  </table>

Jeffrey E. Barrick http://www.openwetware.org/index.php?title=Talk:CH391L/S12/Pattern_Formation&diff=596856&oldid=prev Jared Ellefson at 15:54, 9 April 2012 2012-04-09T15:54:52Z

<p></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 15:54, 9 April 2012</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 13:</td> <td colspan="2" class="diff-lineno">Line 13:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:44, 6 April 2012 (EDT)''':Has anything "useful" ever been done with synthetic pattern formation? Do you think it would be possible to get noncircular colony growth for ''E. coli'' (or noncircular spreading in soft agar) by putting one of these circuits in that would "sector" the colony and change how it spread or something like that?</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:44, 6 April 2012 (EDT)''':Has anything "useful" ever been done with synthetic pattern formation? Do you think it would be possible to get noncircular colony growth for ''E. coli'' (or noncircular spreading in soft agar) by putting one of these circuits in that would "sector" the colony and change how it spread or something like that?</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 18:10, 7 April 2012 (EDT)''':Depends on the definition of useful. I certainly foresee this being an enabling technology. But I'm not sure how useful it will be in E.coli. The real biomedical applications might start to take place once systems like this are imported into mammalian cell culture. In terms of non-circular colony growth, yeah I bet this is possible. My guess is tricky though, if you're dealing with cell survival. I'm not sure the exact parameters you are thinking of (autonomous vs non-autonomous), but I bet you could do some fun stuff with light controlling cell growth.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 18:10, 7 April 2012 (EDT)''':Depends on the definition of useful. I certainly foresee this being an enabling technology. But I'm not sure how useful it will be in E.coli. The real biomedical applications might start to take place once systems like this are imported into mammalian cell culture. In terms of non-circular colony growth, yeah I bet this is possible. My guess is tricky though, if you're dealing with cell survival. I'm not sure the exact parameters you are thinking of (autonomous vs non-autonomous), but I bet you could do some fun stuff with light controlling cell growth.</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;">**'''[[User:Jared Ellefson|Jared Ellefson]] 11:54, 9 April 2012 (EDT)''':This paper[http://pubs.acs.org/doi/pdf/10.1021/ja105431h] is pretty cool. They use DNA to form extracellular matrix-like scaffolds. In which cells can do things based on the structural characteristics of the scaffold. And this is fully programmable because it is made of DNA.  </ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Ben Slater|Ben Slater]] 20:27, 8 April 2012 (EDT)''': Think it's possible to design a color bacterial photo system? As in, color output, not just input?</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Ben Slater|Ben Slater]] 20:27, 8 April 2012 (EDT)''': Think it's possible to design a color bacterial photo system? As in, color output, not just input?</div></td></tr> <tr><td colspan="2" class="diff-lineno">Line 18:</td> <td colspan="2" class="diff-lineno">Line 19:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Adam Meyer|Adam Meyer]] 11:21, 9 April 2012 (EDT)''':It seems as though in all the cases listed, the pattern is specified by the investigator.  Are there systems in which the investigator sets up conditions and the organisms form an optimal pattern that fits those conditions?  In other words, the pattern is not known ''a priori'' but answers some question.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Adam Meyer|Adam Meyer]] 11:21, 9 April 2012 (EDT)''':It seems as though in all the cases listed, the pattern is specified by the investigator.  Are there systems in which the investigator sets up conditions and the organisms form an optimal pattern that fits those conditions?  In other words, the pattern is not known ''a priori'' but answers some question.</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;">**'''[[User:Jared Ellefson|Jared Ellefson]] 11:54, 9 April 2012 (EDT)''':This paper[http://www.sciencemag.org/content/327/5964/439.full.pdf] describes pattern formation where the ''program'' is natural to the organism, but the parameters are synthetic. In the paper, a mold is grown on a plate with strategically placed food sources that resemble the Tokyo rail system. The mold then creates the most efficient pathing between the food nodes. It is really surprising that the biological map created from this highly resembles the actual engineered routes.</ins></div></td></tr>  </table>

Jared Ellefson http://www.openwetware.org/index.php?title=Talk:CH391L/S12/Pattern_Formation&diff=596854&oldid=prev Adam Meyer at 15:21, 9 April 2012 2012-04-09T15:21:51Z

<p></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 15:21, 9 April 2012</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 16:</td> <td colspan="2" class="diff-lineno">Line 16:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Ben Slater|Ben Slater]] 20:27, 8 April 2012 (EDT)''': Think it's possible to design a color bacterial photo system? As in, color output, not just input?</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Ben Slater|Ben Slater]] 20:27, 8 April 2012 (EDT)''': Think it's possible to design a color bacterial photo system? As in, color output, not just input?</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 11:07, 9 April 2012 (EDT)''':YES! Definitely. For instance the multicolor system has two lacZ genes, one that is turned "ON" by Green and the other turned "ON" by RED. I think simply just changing the LacZ genes to GFP and mCherry for instance could give you an exact color copy of the image you display. It would be fun to just see ''how'' complicated you can build these light circuits.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 11:07, 9 April 2012 (EDT)''':YES! Definitely. For instance the multicolor system has two lacZ genes, one that is turned "ON" by Green and the other turned "ON" by RED. I think simply just changing the LacZ genes to GFP and mCherry for instance could give you an exact color copy of the image you display. It would be fun to just see ''how'' complicated you can build these light circuits.</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;"></ins></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;">*'''[[User:Adam Meyer|Adam Meyer]] 11:21, 9 April 2012 (EDT)''':It seems as though in all the cases listed, the pattern is specified by the investigator.  Are there systems in which the investigator sets up conditions and the organisms form an optimal pattern that fits those conditions?  In other words, the pattern is not known ''a priori'' but answers some question.</ins></div></td></tr>  </table>

Adam Meyer http://www.openwetware.org/index.php?title=Talk:CH391L/S12/Pattern_Formation&diff=596853&oldid=prev Jared Ellefson at 15:07, 9 April 2012 2012-04-09T15:07:15Z

<p></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 15:07, 9 April 2012</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 15:</td> <td colspan="2" class="diff-lineno">Line 15:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Ben Slater|Ben Slater]] 20:27, 8 April 2012 (EDT)''': Think it's possible to design a color bacterial photo system? As in, color output, not just input?</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Ben Slater|Ben Slater]] 20:27, 8 April 2012 (EDT)''': Think it's possible to design a color bacterial photo system? As in, color output, not just input?</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;">**'''[[User:Jared Ellefson|Jared Ellefson]] 11:07, 9 April 2012 (EDT)''':YES! Definitely. For instance the multicolor system has two lacZ genes, one that is turned "ON" by Green and the other turned "ON" by RED. I think simply just changing the LacZ genes to GFP and mCherry for instance could give you an exact color copy of the image you display. It would be fun to just see ''how'' complicated you can build these light circuits.</ins></div></td></tr>  </table>

Jared Ellefson http://www.openwetware.org/index.php?title=Talk:CH391L/S12/Pattern_Formation&diff=596716&oldid=prev Ben Slater at 00:27, 9 April 2012 2012-04-09T00:27:36Z

<p></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 00:27, 9 April 2012</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 13:</td> <td colspan="2" class="diff-lineno">Line 13:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:44, 6 April 2012 (EDT)''':Has anything "useful" ever been done with synthetic pattern formation? Do you think it would be possible to get noncircular colony growth for ''E. coli'' (or noncircular spreading in soft agar) by putting one of these circuits in that would "sector" the colony and change how it spread or something like that?</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:44, 6 April 2012 (EDT)''':Has anything "useful" ever been done with synthetic pattern formation? Do you think it would be possible to get noncircular colony growth for ''E. coli'' (or noncircular spreading in soft agar) by putting one of these circuits in that would "sector" the colony and change how it spread or something like that?</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 18:10, 7 April 2012 (EDT)''':Depends on the definition of useful. I certainly foresee this being an enabling technology. But I'm not sure how useful it will be in E.coli. The real biomedical applications might start to take place once systems like this are imported into mammalian cell culture. In terms of non-circular colony growth, yeah I bet this is possible. My guess is tricky though, if you're dealing with cell survival. I'm not sure the exact parameters you are thinking of (autonomous vs non-autonomous), but I bet you could do some fun stuff with light controlling cell growth.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 18:10, 7 April 2012 (EDT)''':Depends on the definition of useful. I certainly foresee this being an enabling technology. But I'm not sure how useful it will be in E.coli. The real biomedical applications might start to take place once systems like this are imported into mammalian cell culture. In terms of non-circular colony growth, yeah I bet this is possible. My guess is tricky though, if you're dealing with cell survival. I'm not sure the exact parameters you are thinking of (autonomous vs non-autonomous), but I bet you could do some fun stuff with light controlling cell growth.</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;"></ins></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;">*'''[[User:Ben Slater|Ben Slater]] 20:27, 8 April 2012 (EDT)''': Think it's possible to design a color bacterial photo system? As in, color output, not just input?</ins></div></td></tr>   </table>

Ben Slater http://www.openwetware.org/index.php?title=Talk:CH391L/S12/Pattern_Formation&diff=596586&oldid=prev Jared Ellefson at 22:20, 7 April 2012 2012-04-07T22:20:21Z

<p></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 22:20, 7 April 2012</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 3:</td> <td colspan="2" class="diff-lineno">Line 3:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:29, 6 April 2012 (EDT)''':There's a nice presentation posted many places online, including [http://psiren.cs.nott.ac.uk/projects/synbiont/attachment/wiki/WikiAttachments/Righetti_Romero.pptx here], which seems to contain unpublished computational modeling of more complex circuits and pattern formation, but without any wet lab work.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:29, 6 April 2012 (EDT)''':There's a nice presentation posted many places online, including [http://psiren.cs.nott.ac.uk/projects/synbiont/attachment/wiki/WikiAttachments/Righetti_Romero.pptx here], which seems to contain unpublished computational modeling of more complex circuits and pattern formation, but without any wet lab work.</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 18:10, 7 April 2012 (EDT)''':I think this brings up an interesting topic. How much weight should a <del class="diffchange diffchange-inline">nontested </del>biological model hold? Biological models sometimes don't work due to <del class="diffchange diffchange-inline">the </del>idiosyncrasies <del class="diffchange diffchange-inline">of biology</del>. But that said, I'd be curious to see how that circuit would work, it has a very BZ reaction feel which is cool (http://www.youtube.com/watch?v=3JAqrRnKFHo).  </div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 18:10, 7 April 2012 (EDT)''':I think this brings up an interesting topic. How much weight should a <ins class="diffchange diffchange-inline">non-tested </ins>biological model hold? Biological models sometimes don't work due to idiosyncrasies. But that said, I'd be curious to see how that circuit would work, it has a very BZ reaction feel which is cool (http://www.youtube.com/watch?v=3JAqrRnKFHo).  </div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:29, 6 April 2012 (EDT)''':Your references aren't working correctly: the syntax for the end of the line is pmid=12219076</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:29, 6 April 2012 (EDT)''':Your references aren't working correctly: the syntax for the end of the line is pmid=12219076</div></td></tr>  </table>

Jared Ellefson http://www.openwetware.org/index.php?title=Talk:CH391L/S12/Pattern_Formation&diff=596584&oldid=prev Jared Ellefson at 22:19, 7 April 2012 2012-04-07T22:19:04Z

<p></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 22:19, 7 April 2012</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 3:</td> <td colspan="2" class="diff-lineno">Line 3:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:29, 6 April 2012 (EDT)''':There's a nice presentation posted many places online, including [http://psiren.cs.nott.ac.uk/projects/synbiont/attachment/wiki/WikiAttachments/Righetti_Romero.pptx here], which seems to contain unpublished computational modeling of more complex circuits and pattern formation, but without any wet lab work.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:29, 6 April 2012 (EDT)''':There's a nice presentation posted many places online, including [http://psiren.cs.nott.ac.uk/projects/synbiont/attachment/wiki/WikiAttachments/Righetti_Romero.pptx here], which seems to contain unpublished computational modeling of more complex circuits and pattern formation, but without any wet lab work.</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 18:10, 7 April 2012 (EDT)''':I think this brings up an interesting topic. How much weight should a nontested biological model hold? <del class="diffchange diffchange-inline">I mean, it</del>'<del class="diffchange diffchange-inline">s obvious in every example that </del>the idiosyncrasies of biology <del class="diffchange diffchange-inline">make it hard to guess whether or not this model would work at all</del>. But that said, I'd be curious to see how that circuit would work, it has a very BZ reaction feel which is cool (http://www.youtube.com/watch?v=3JAqrRnKFHo).  </div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 18:10, 7 April 2012 (EDT)''':I think this brings up an interesting topic. How much weight should a nontested biological model hold? <ins class="diffchange diffchange-inline">Biological models sometimes don</ins>'<ins class="diffchange diffchange-inline">t work due to </ins>the idiosyncrasies of biology. But that said, I'd be curious to see how that circuit would work, it has a very BZ reaction feel which is cool (http://www.youtube.com/watch?v=3JAqrRnKFHo).  </div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:29, 6 April 2012 (EDT)''':Your references aren't working correctly: the syntax for the end of the line is pmid=12219076</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:29, 6 April 2012 (EDT)''':Your references aren't working correctly: the syntax for the end of the line is pmid=12219076</div></td></tr>  </table>

Jared Ellefson http://www.openwetware.org/index.php?title=Talk:CH391L/S12/Pattern_Formation&diff=596583&oldid=prev Jared Ellefson at 22:17, 7 April 2012 2012-04-07T22:17:37Z

<p></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 22:17, 7 April 2012</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 7:</td> <td colspan="2" class="diff-lineno">Line 7:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:29, 6 April 2012 (EDT)''':Your references aren't working correctly: the syntax for the end of the line is pmid=12219076</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:29, 6 April 2012 (EDT)''':Your references aren't working correctly: the syntax for the end of the line is pmid=12219076</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 18:10, 7 April 2012 (EDT)''':Fixed</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 18:10, 7 April 2012 (EDT)''':Fixed</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;"></del></div></td><td colspan="2"> </td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:44, 6 April 2012 (EDT)''': Spelling: "achieved". First sentence of "Synthetic pattern formation..." needs help.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:44, 6 April 2012 (EDT)''': Spelling: "achieved". First sentence of "Synthetic pattern formation..." needs help.</div></td></tr>  </table>

Jared Ellefson http://www.openwetware.org/index.php?title=Talk:CH391L/S12/Pattern_Formation&diff=596582&oldid=prev Jared Ellefson at 22:17, 7 April 2012 2012-04-07T22:17:25Z

<p></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 22:17, 7 April 2012</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 1:</td> <td colspan="2" class="diff-lineno">Line 1:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:29, 6 April 2012 (EDT)''':Images need citations. Chili peppers are tiny?</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:29, 6 April 2012 (EDT)''':Images need citations. Chili peppers are tiny?</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;">**'''[[User:Jared Ellefson|Jared Ellefson]] 18:17, 7 April 2012 (EDT)''':Fixed the chili problem. But it's not letting me add text to the figures? I'll keep working on it</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:29, 6 April 2012 (EDT)''':There's a nice presentation posted many places online, including [http://psiren.cs.nott.ac.uk/projects/synbiont/attachment/wiki/WikiAttachments/Righetti_Romero.pptx here], which seems to contain unpublished computational modeling of more complex circuits and pattern formation, but without any wet lab work.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:29, 6 April 2012 (EDT)''':There's a nice presentation posted many places online, including [http://psiren.cs.nott.ac.uk/projects/synbiont/attachment/wiki/WikiAttachments/Righetti_Romero.pptx here], which seems to contain unpublished computational modeling of more complex circuits and pattern formation, but without any wet lab work.</div></td></tr> <tr><td colspan="2" class="diff-lineno">Line 9:</td> <td colspan="2" class="diff-lineno">Line 10:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:44, 6 April 2012 (EDT)''': Spelling: "achieved". First sentence of "Synthetic pattern formation..." needs help.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:44, 6 April 2012 (EDT)''': Spelling: "achieved". First sentence of "Synthetic pattern formation..." needs help.</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;">**'''[[User:Jared Ellefson|Jared Ellefson]] 18:17, 7 April 2012 (EDT)''':ok</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:44, 6 April 2012 (EDT)''':Has anything "useful" ever been done with synthetic pattern formation? Do you think it would be possible to get noncircular colony growth for ''E. coli'' (or noncircular spreading in soft agar) by putting one of these circuits in that would "sector" the colony and change how it spread or something like that?</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>*'''[[User:Jeffrey E. Barrick|Jeffrey E. Barrick]] 10:44, 6 April 2012 (EDT)''':Has anything "useful" ever been done with synthetic pattern formation? Do you think it would be possible to get noncircular colony growth for ''E. coli'' (or noncircular spreading in soft agar) by putting one of these circuits in that would "sector" the colony and change how it spread or something like that?</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 18:10, 7 April 2012 (EDT)''':Depends on the definition of useful. I certainly foresee this being an enabling technology. But I'm not sure how useful it will be in E.coli. The real biomedical applications might start to take place once systems like this are imported into mammalian cell culture. In terms of non-circular colony growth, yeah I bet this is possible. My guess is tricky though, if you're dealing with cell survival. I'm not sure the exact parameters you are thinking of (autonomous vs non-autonomous), but I bet you could do some fun stuff with light controlling cell growth.</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>**'''[[User:Jared Ellefson|Jared Ellefson]] 18:10, 7 April 2012 (EDT)''':Depends on the definition of useful. I certainly foresee this being an enabling technology. But I'm not sure how useful it will be in E.coli. The real biomedical applications might start to take place once systems like this are imported into mammalian cell culture. In terms of non-circular colony growth, yeah I bet this is possible. My guess is tricky though, if you're dealing with cell survival. I'm not sure the exact parameters you are thinking of (autonomous vs non-autonomous), but I bet you could do some fun stuff with light controlling cell growth.</div></td></tr>  </table>

Jared Ellefson