http://2013.igem.org/wiki/index.php?title=Team:TU-Delft/novel_approach&feed=atom&action=historyTeam:TU-Delft/novel approach - Revision history2024-03-28T23:59:08ZRevision history for this page on the wikiMediaWiki 1.16.5http://2013.igem.org/wiki/index.php?title=Team:TU-Delft/novel_approach&diff=302988&oldid=prevMaithiliKrishnan at 20:40, 4 October 20132013-10-04T20:40:58Z<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 20:40, 4 October 2013</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><div style="margin-top:10px;margin-left:30px;margin-right:30px; margin-top=30px; float:left;display:inline-block;"> <br> </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><div style="margin-top:10px;margin-left:30px;margin-right:30px; margin-top=30px; float:left;display:inline-block;"> <br> </div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2 align="center">Novel approaches on Human Practice</h2></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2 align="center">Novel approaches on Human Practice</h2></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p align="justify">In the iGEM competition certain regions/continents (e.g. Africa and Latin America) have few teams and this over the past recent years. One of the reasons for this may be the lack of lab equipment for characterization. In our view, being able to participate in the iGEM competition should be accessible to everyone and the cost of equipment should not come to hinder creativity all over the world. <<del class="diffchange diffchange-inline">br</del>></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p align="justify">In the iGEM competition certain regions/continents (e.g. Africa and Latin America) have few teams and this over the past recent years. One of the reasons for this may be the lack of lab equipment for characterization. In our view, being able to participate in the iGEM competition should be accessible to everyone and the cost of equipment should not come to hinder creativity all over the world.<<ins class="diffchange diffchange-inline">/p</ins>></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>Therefore we took a noval approach in the Human Practive to open op synthetic biology by designing a DIY lab device, a low cost fluorescent scanner, the <a href="https://2013.igem.org/Team:TU-Delft/Zephyr" target="blank">Zephyr</a>. The Zephyr is more affordable than the exciting fluorescence scanner Tyhpoon (1500 dollar vs. 120,000 dollars). Furthermore, we designed it in such a way that it is easy for everyone to build. This way research is made possible in places where people don't have access to the expensive instruments (ownership) and encourages the idea of resource and knowledge sharing.</p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline"><p align="justify"> </ins>Therefore we took a noval approach in the Human Practive to open op synthetic biology by designing a DIY lab device, a low cost fluorescent scanner, the <a href="https://2013.igem.org/Team:TU-Delft/Zephyr" target="blank">Zephyr</a>. The Zephyr is more affordable than the exciting fluorescence scanner Tyhpoon (1500 dollar vs. 120,000 dollars). Furthermore, we designed it in such a way that it is easy for everyone to build. This way research is made possible in places where people don't have access to the expensive instruments (ownership) and encourages the idea of resource and knowledge sharing.</p></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">In iGEM projects safety is usually 'added'. We took the new approach by changing the natural part itself to become more safe. Signiferin, the antimicrobial peptide used, is at a concentration of 100-150 μM toxic to simian cells. We as the team 'Peptidor' were curious and enthusiastic to make our own novel peptide that is less toxic to simian cells. This way the use of these peptides would be safer, since the toxicity for humans would be less. We then used machine learning on antimicrobial peptides (AMP) databases. <a href="https://2013.igem.org/Team:TU-Delft/NovelPeptides" target="blank">This model</a> then derived rules by which we manually designed 3 novel peptides. They were also tested on COS-1 cells to prove that they are less not toxic to mammals than signiferin. This way the safety is improved by altering the biological part (the antimicrobial peptide), which is a noval approach on combining modeling, human practice and lab-work. </p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">In iGEM projects safety is usually 'added'. We took the new approach by changing the natural part itself to become more safe. Signiferin, the antimicrobial peptide used, is at a concentration of 100-150 μM toxic to simian cells. We as the team 'Peptidor' were curious and enthusiastic to make our own novel peptide that is less toxic to simian cells. This way the use of these peptides would be safer, since the toxicity for humans would be less. We then used machine learning on antimicrobial peptides (AMP) databases. <a href="https://2013.igem.org/Team:TU-Delft/NovelPeptides" target="blank">This model</a> then derived rules by which we manually designed 3 novel peptides. They were also tested on COS-1 cells to prove that they are less not toxic to mammals than signiferin. This way the safety is improved by altering the biological part (the antimicrobial peptide), which is a noval approach on combining modeling, human practice and lab-work. </p></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 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><p align="justify">Our project has several implications on environment, security and safety. The main aim of our project is to develop a novel approach to combat MRSA (Methicillin Resistant <i>Staphylococcus aureus</i>). This clearly suggests that the safety, security and environmental issues that might arise, should to be addressed in an convincing manner.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">Our project has several implications on environment, security and safety. The main aim of our project is to develop a novel approach to combat MRSA (Methicillin Resistant <i>Staphylococcus aureus</i>). This clearly suggests that the safety, security and environmental issues that might arise, should to be addressed in an convincing manner.</p></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">The safety and security issues were considered for choosing some bacterial strains that were in need for our project. We had a detailed discussion with our Bio safety Officer (BVF), as we need to fight MRSA. She suggested us to use closely related species on the BSL-1 permit, as we have only the permit to work with BSL-1 strains. We decided to use the closely related species <i>S. delphini</i> (DSMZ 20771) which was listed in BSL-1 permit to carry out our minimum inhibitory concentration (MIC) tests.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">The safety and security issues were considered for choosing some bacterial strains that were in need for our project. We had a detailed discussion with our Bio safety Officer (BVF), as we need to fight MRSA. She suggested us to use closely related species on the BSL-1 permit, as we have only the permit to work with BSL-1 strains. We decided to use the closely related species <i>S. delphini</i> (DSMZ 20771) which was listed in BSL-1 permit to carry out our minimum inhibitory concentration (MIC) tests.</p></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p>The security of the people working in lab was considered as at most high priority while choosing to work with natural peptides. They were chosen not to harm the people working with it and the surroundings. The environmental security was considered to be the most crucial feature of our project. The ultimate application of our project will be a 'Band Aid' having our engineered bacteria. This rises plenty of environmental <a href="https://2013.igem.org/Team:TU-Delft/Safety" target="blank">safety</a> & security concerns on the use and disposal of genetically modified organisms (GMO). To address these concerns, we used a kill switch, <a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K112808" target="blank">BBa_K112808</a> that was engineered by UC Berkley 2008 iGEM team. The cells undergo autolysis once the required target protein is produced in required quantities.</p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p <ins class="diffchange diffchange-inline">align="justify"</ins>>The security of the people working in lab was considered as at most high priority while choosing to work with natural peptides. They were chosen not to harm the people working with it and the surroundings. The environmental security was considered to be the most crucial feature of our project. The ultimate application of our project will be a 'Band Aid' having our engineered bacteria. This rises plenty of environmental <a href="https://2013.igem.org/Team:TU-Delft/Safety" target="blank">safety</a> & security concerns on the use and disposal of genetically modified organisms (GMO). To address these concerns, we used a kill switch, <a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K112808" target="blank">BBa_K112808</a> that was engineered by UC Berkley 2008 iGEM team. The cells undergo autolysis once the required target protein is produced in required quantities.</p></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></html></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div></html></div></td></tr>
</table>MaithiliKrishnanhttp://2013.igem.org/wiki/index.php?title=Team:TU-Delft/novel_approach&diff=302948&oldid=prevMaithiliKrishnan at 20:39, 4 October 20132013-10-04T20:39:51Z<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 20:39, 4 October 2013</td>
</tr><tr><td colspan="2" class="diff-lineno">Line 9:</td>
<td colspan="2" class="diff-lineno">Line 9:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">In the iGEM competition certain regions/continents (e.g. Africa and Latin America) have few teams and this over the past recent years. One of the reasons for this may be the lack of lab equipment for characterization. In our view, being able to participate in the iGEM competition should be accessible to everyone and the cost of equipment should not come to hinder creativity all over the world. <br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">In the iGEM competition certain regions/continents (e.g. Africa and Latin America) have few teams and this over the past recent years. One of the reasons for this may be the lack of lab equipment for characterization. In our view, being able to participate in the iGEM competition should be accessible to everyone and the cost of equipment should not come to hinder creativity all over the world. <br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Therefore we took a noval approach in the Human Practive to open op synthetic biology by designing a DIY lab device, a low cost fluorescent scanner, the <a href="https://2013.igem.org/Team:TU-Delft/Zephyr" target="blank">Zephyr</a>. The Zephyr is more affordable than the exciting fluorescence scanner Tyhpoon (1500 dollar vs. 120,000 dollars). Furthermore, we designed it in such a way that it is easy for everyone to build. This way research is made possible in places where people don't have access to the expensive instruments (ownership) and encourages the idea of resource and knowledge sharing.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Therefore we took a noval approach in the Human Practive to open op synthetic biology by designing a DIY lab device, a low cost fluorescent scanner, the <a href="https://2013.igem.org/Team:TU-Delft/Zephyr" target="blank">Zephyr</a>. The Zephyr is more affordable than the exciting fluorescence scanner Tyhpoon (1500 dollar vs. 120,000 dollars). Furthermore, we designed it in such a way that it is easy for everyone to build. This way research is made possible in places where people don't have access to the expensive instruments (ownership) and encourages the idea of resource and knowledge sharing.</p></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p>In iGEM projects safety is usually 'added'. We took the new approach by changing the natural part itself to become more safe. Signiferin, the antimicrobial peptide used, is at a concentration of 100-150 μM toxic to simian cells. We as the team 'Peptidor' were curious and enthusiastic to make our own novel peptide that is less toxic to simian cells. This way the use of these peptides would be safer, since the toxicity for humans would be less. We then used machine learning on antimicrobial peptides (AMP) databases. <a href="https://2013.igem.org/Team:TU-Delft/NovelPeptides" target="blank">This model</a> then derived rules by which we manually designed 3 novel peptides. They were also tested on COS-1 cells to prove that they are less not toxic to mammals than signiferin. This way the safety is improved by altering the biological part (the antimicrobial peptide), which is a noval approach on combining modeling, human practice and lab-work. </p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p <ins class="diffchange diffchange-inline">align="justify"</ins>>In iGEM projects safety is usually 'added'. We took the new approach by changing the natural part itself to become more safe. Signiferin, the antimicrobial peptide used, is at a concentration of 100-150 μM toxic to simian cells. We as the team 'Peptidor' were curious and enthusiastic to make our own novel peptide that is less toxic to simian cells. This way the use of these peptides would be safer, since the toxicity for humans would be less. We then used machine learning on antimicrobial peptides (AMP) databases. <a href="https://2013.igem.org/Team:TU-Delft/NovelPeptides" target="blank">This model</a> then derived rules by which we manually designed 3 novel peptides. They were also tested on COS-1 cells to prove that they are less not toxic to mammals than signiferin. This way the safety is improved by altering the biological part (the antimicrobial peptide), which is a noval approach on combining modeling, human practice and lab-work. </p></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><h2 align="center">Implications of project</h2></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2 align="center">Implications of project</h2></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">Our project has several implications on environment, security and safety. The main aim of our project is to develop a novel approach to combat MRSA (Methicillin Resistant <i>Staphylococcus aureus</i>). This clearly suggests that the safety, security and environmental issues that might arise, should to be addressed in an convincing manner.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">Our project has several implications on environment, security and safety. The main aim of our project is to develop a novel approach to combat MRSA (Methicillin Resistant <i>Staphylococcus aureus</i>). This clearly suggests that the safety, security and environmental issues that might arise, should to be addressed in an convincing manner.</p></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p>The safety and security issues were considered for choosing some bacterial strains that were in need for our project. We had a detailed discussion with our Bio safety Officer (BVF), as we need to fight MRSA. She suggested us to use closely related species on the BSL-1 permit, as we have only the permit to work with BSL-1 strains. We decided to use the closely related species <i>S. delphini</i> (DSMZ 20771) which was listed in BSL-1 permit to carry out our minimum inhibitory concentration (MIC) tests.</p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p <ins class="diffchange diffchange-inline">align="justify"</ins>>The safety and security issues were considered for choosing some bacterial strains that were in need for our project. We had a detailed discussion with our Bio safety Officer (BVF), as we need to fight MRSA. She suggested us to use closely related species on the BSL-1 permit, as we have only the permit to work with BSL-1 strains. We decided to use the closely related species <i>S. delphini</i> (DSMZ 20771) which was listed in BSL-1 permit to carry out our minimum inhibitory concentration (MIC) tests.</p></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p>The security of the people working in lab was considered as at most high priority while choosing to work with natural peptides. They were chosen not to harm the people working with it and the surroundings. The environmental security was considered to be the most crucial feature of our project. The ultimate application of our project will be a 'Band Aid' having our engineered bacteria. This rises plenty of environmental <a href="https://2013.igem.org/Team:TU-Delft/Safety" target="blank">safety</a> & security concerns on the use and disposal of genetically modified organisms (GMO). To address these concerns, we used a kill switch, <a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K112808" target="blank">BBa_K112808</a> that was engineered by UC Berkley 2008 iGEM team. The cells undergo autolysis once the required target protein is produced in required quantities.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p>The security of the people working in lab was considered as at most high priority while choosing to work with natural peptides. They were chosen not to harm the people working with it and the surroundings. The environmental security was considered to be the most crucial feature of our project. The ultimate application of our project will be a 'Band Aid' having our engineered bacteria. This rises plenty of environmental <a href="https://2013.igem.org/Team:TU-Delft/Safety" target="blank">safety</a> & security concerns on the use and disposal of genetically modified organisms (GMO). To address these concerns, we used a kill switch, <a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K112808" target="blank">BBa_K112808</a> that was engineered by UC Berkley 2008 iGEM team. The cells undergo autolysis once the required target protein is produced in required quantities.</p></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></html></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div></html></div></td></tr>
</table>MaithiliKrishnanhttp://2013.igem.org/wiki/index.php?title=Team:TU-Delft/novel_approach&diff=299134&oldid=prevRbharathkumar at 18:08, 4 October 20132013-10-04T18:08:54Z<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 18:08, 4 October 2013</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><p align="justify">Our project has several implications on environment, security and safety. The main aim of our project is to develop a novel approach to combat MRSA (Methicillin Resistant <i>Staphylococcus aureus</i>). This clearly suggests that the safety, security and environmental issues that might arise, should to be addressed in an convincing manner.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">Our project has several implications on environment, security and safety. The main aim of our project is to develop a novel approach to combat MRSA (Methicillin Resistant <i>Staphylococcus aureus</i>). This clearly suggests that the safety, security and environmental issues that might arise, should to be addressed in an convincing manner.</p></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p>The safety and security issues were considered for choosing some bacterial strains that were in need for our project. We had a detailed discussion with our Bio safety Officer (BVF), as we need to fight MRSA. She suggested us to use closely related species on the BSL-1 permit, as we have only the permit to work with BSL-1 strains. We decided to use the closely related species <i>S. delphini</i> (DSMZ 20771) which was listed in BSL-1 permit to carry out our minimum inhibitory concentration (MIC) tests.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p>The safety and security issues were considered for choosing some bacterial strains that were in need for our project. We had a detailed discussion with our Bio safety Officer (BVF), as we need to fight MRSA. She suggested us to use closely related species on the BSL-1 permit, as we have only the permit to work with BSL-1 strains. We decided to use the closely related species <i>S. delphini</i> (DSMZ 20771) which was listed in BSL-1 permit to carry out our minimum inhibitory concentration (MIC) tests.</p></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p>The security of the people working in lab was considered as at most high priority while choosing to work with natural peptides. They were chosen not to harm the people working with it and the surroundings. The environmental security was considered to be the most crucial feature of our project. The ultimate application of our project will be a 'Band Aid' having our engineered bacteria. This rises plenty of environmental <a href="https://2013.igem.org/Team:TU-Delft/Safety" target="blank">safety</a> & security concerns on the use and disposal of genetically modified organisms (GMO). To address these concerns, we used a kill switch, <del class="diffchange diffchange-inline">(</del><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K112808" target="blank">BBa_K112808</a><del class="diffchange diffchange-inline">) </del>that was engineered by UC Berkley 2008 iGEM team. The cells undergo autolysis once the required target protein is produced in required quantities.</p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p>The security of the people working in lab was considered as at most high priority while choosing to work with natural peptides. They were chosen not to harm the people working with it and the surroundings. The environmental security was considered to be the most crucial feature of our project. The ultimate application of our project will be a 'Band Aid' having our engineered bacteria. This rises plenty of environmental <a href="https://2013.igem.org/Team:TU-Delft/Safety" target="blank">safety</a> & security concerns on the use and disposal of genetically modified organisms (GMO). To address these concerns, we used a kill switch, <a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K112808" target="blank">BBa_K112808</a> that was engineered by UC Berkley 2008 iGEM team. The cells undergo autolysis once the required target protein is produced in required quantities.</p></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></html></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div></html></div></td></tr>
</table>Rbharathkumarhttp://2013.igem.org/wiki/index.php?title=Team:TU-Delft/novel_approach&diff=299121&oldid=prevRbharathkumar at 18:08, 4 October 20132013-10-04T18:08:22Z<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 18:08, 4 October 2013</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><p align="justify">Our project has several implications on environment, security and safety. The main aim of our project is to develop a novel approach to combat MRSA (Methicillin Resistant <i>Staphylococcus aureus</i>). This clearly suggests that the safety, security and environmental issues that might arise, should to be addressed in an convincing manner.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">Our project has several implications on environment, security and safety. The main aim of our project is to develop a novel approach to combat MRSA (Methicillin Resistant <i>Staphylococcus aureus</i>). This clearly suggests that the safety, security and environmental issues that might arise, should to be addressed in an convincing manner.</p></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p>The safety and security issues were considered for choosing some bacterial strains that were in need for our project. We had a detailed discussion with our Bio safety Officer (BVF), as we need to fight MRSA. She suggested us to use closely related species on the BSL-1 permit, as we have only the permit to work with BSL-1 strains. We decided to use the closely related species <i>S. delphini</i> (DSMZ 20771) which was listed in BSL-1 permit to carry out our minimum inhibitory concentration (MIC) tests.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p>The safety and security issues were considered for choosing some bacterial strains that were in need for our project. We had a detailed discussion with our Bio safety Officer (BVF), as we need to fight MRSA. She suggested us to use closely related species on the BSL-1 permit, as we have only the permit to work with BSL-1 strains. We decided to use the closely related species <i>S. delphini</i> (DSMZ 20771) which was listed in BSL-1 permit to carry out our minimum inhibitory concentration (MIC) tests.</p></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p>The security of the people working in lab was considered as at most high priority while choosing to work with natural peptides. They were chosen not to harm the people working with it and the surroundings. The environmental security was considered to be the most crucial feature of our project. The ultimate application of our project will be a 'Band Aid' having our engineered bacteria. This rises plenty of environmental <a href="https://2013.igem.org/Team:TU-Delft/Safety" target="blank">safety</a> & security concerns on the use and disposal of genetically modified organisms (GMO). To address these concerns, we used a kill switch, BBa_K112808 that was engineered by UC Berkley 2008 iGEM team. The cells undergo autolysis once the required target protein is produced in required quantities.</p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p>The security of the people working in lab was considered as at most high priority while choosing to work with natural peptides. They were chosen not to harm the people working with it and the surroundings. The environmental security was considered to be the most crucial feature of our project. The ultimate application of our project will be a 'Band Aid' having our engineered bacteria. This rises plenty of environmental <a href="https://2013.igem.org/Team:TU-Delft/Safety" target="blank">safety</a> & security concerns on the use and disposal of genetically modified organisms (GMO). To address these concerns, we used a kill switch, <ins class="diffchange diffchange-inline">(<a href="http://parts.igem.org/wiki/index.php?title=Part:</ins>BBa_K112808<ins class="diffchange diffchange-inline">" target="blank">BBa_K112808</a>) </ins>that was engineered by UC Berkley 2008 iGEM team. The cells undergo autolysis once the required target protein is produced in required quantities.</p></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></html></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div></html></div></td></tr>
</table>Rbharathkumarhttp://2013.igem.org/wiki/index.php?title=Team:TU-Delft/novel_approach&diff=294127&oldid=prevJfkooijman at 14:42, 4 October 20132013-10-04T14:42:51Z<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 14:42, 4 October 2013</td>
</tr><tr><td colspan="2" class="diff-lineno">Line 12:</td>
<td colspan="2" class="diff-lineno">Line 12:</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><h2 align="center">Implications of project</h2></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2 align="center">Implications of project</h2></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p align="justify">Our project has <del class="diffchange diffchange-inline">strong </del>implications on environment , security and safety. The main aim of our project is to <del class="diffchange diffchange-inline">have an </del>novel approach to combat MRSA (Methicillin Resistant <i>Staphylococcus aureus</i>). This<del class="diffchange diffchange-inline">, </del>clearly suggests that the safety, security and environmental issues that might arise, should to be addressed in an convincing manner.</p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p align="justify">Our project has <ins class="diffchange diffchange-inline">several </ins>implications on environment, security and safety. The main aim of our project is to <ins class="diffchange diffchange-inline">develop a </ins>novel approach to combat MRSA (Methicillin Resistant <i>Staphylococcus aureus</i>). This clearly suggests that the safety, security and environmental issues that might arise, should to be addressed in an convincing manner.</p></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p>The safety and security issues were considered for choosing some bacterial strains that were in need for our project. We had a detailed discussion with our Bio safety Officer (BVF), as we need to fight MRSA. She suggested us to use closely related species <del class="diffchange diffchange-inline">of </del>BSL-1, as we have only the permit to work with BSL-1 strains. We <del class="diffchange diffchange-inline">then used </del>the closely related species <i>S. delphini</i> (DSMZ 20771) which was listed in BSL-1 permit to carry out our minimum inhibitory concentration (MIC) tests.</p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p>The safety and security issues were considered for choosing some bacterial strains that were in need for our project. We had a detailed discussion with our Bio safety Officer (BVF), as we need to fight MRSA. She suggested us to use closely related species <ins class="diffchange diffchange-inline">on the </ins>BSL-1 <ins class="diffchange diffchange-inline">permit</ins>, as we have only the permit to work with BSL-1 strains. We <ins class="diffchange diffchange-inline">decided to use </ins>the closely related species <i>S. delphini</i> (DSMZ 20771) which was listed in BSL-1 permit to carry out our minimum inhibitory concentration (MIC) tests.</p></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p>The security of the people working in lab was considered as at most high priority while choosing to work with natural peptides. They were chosen not to harm the people working with it and the surroundings. The environmental security was considered to be the most crucial feature of our project. The ultimate application of our project will be a 'Band Aid' having our engineered bacteria. This rises plenty of environmental <a href="https://2013.igem.org/Team:TU-Delft/Safety" target="blank">safety</a> & security concerns on the use and disposal of genetically modified organisms (GMO). To address these concerns, we used a kill switch, BBa_K112808 that was engineered by UC Berkley 2008 iGEM team. The cells undergo autolysis once the required target protein is produced in required quantities.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p>The security of the people working in lab was considered as at most high priority while choosing to work with natural peptides. They were chosen not to harm the people working with it and the surroundings. The environmental security was considered to be the most crucial feature of our project. The ultimate application of our project will be a 'Band Aid' having our engineered bacteria. This rises plenty of environmental <a href="https://2013.igem.org/Team:TU-Delft/Safety" target="blank">safety</a> & security concerns on the use and disposal of genetically modified organisms (GMO). To address these concerns, we used a kill switch, BBa_K112808 that was engineered by UC Berkley 2008 iGEM team. The cells undergo autolysis once the required target protein is produced in required quantities.</p></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></html></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div></html></div></td></tr>
</table>Jfkooijmanhttp://2013.igem.org/wiki/index.php?title=Team:TU-Delft/novel_approach&diff=294063&oldid=prevJfkooijman at 14:40, 4 October 20132013-10-04T14:40:11Z<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 14:40, 4 October 2013</td>
</tr><tr><td colspan="2" class="diff-lineno">Line 9:</td>
<td colspan="2" class="diff-lineno">Line 9:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">In the iGEM competition certain regions/continents (e.g. Africa and Latin America) have few teams and this over the past recent years. One of the reasons for this may be the lack of lab equipment for characterization. In our view, being able to participate in the iGEM competition should be accessible to everyone and the cost of equipment should not come to hinder creativity all over the world. <br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">In the iGEM competition certain regions/continents (e.g. Africa and Latin America) have few teams and this over the past recent years. One of the reasons for this may be the lack of lab equipment for characterization. In our view, being able to participate in the iGEM competition should be accessible to everyone and the cost of equipment should not come to hinder creativity all over the world. <br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Therefore we took a noval approach in the Human Practive to open op synthetic biology by designing a DIY lab device, a low cost fluorescent scanner, the <a href="https://2013.igem.org/Team:TU-Delft/Zephyr" target="blank">Zephyr</a>. The Zephyr is more affordable than the exciting fluorescence scanner Tyhpoon (1500 dollar vs. 120,000 dollars). Furthermore, we designed it in such a way that it is easy for everyone to build. This way research is made possible in places where people don't have access to the expensive instruments (ownership) and encourages the idea of resource and knowledge sharing.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>Therefore we took a noval approach in the Human Practive to open op synthetic biology by designing a DIY lab device, a low cost fluorescent scanner, the <a href="https://2013.igem.org/Team:TU-Delft/Zephyr" target="blank">Zephyr</a>. The Zephyr is more affordable than the exciting fluorescence scanner Tyhpoon (1500 dollar vs. 120,000 dollars). Furthermore, we designed it in such a way that it is easy for everyone to build. This way research is made possible in places where people don't have access to the expensive instruments (ownership) and encourages the idea of resource and knowledge sharing.</p></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p>We as the team 'Peptidor' were curious and enthusiastic to make our own novel <del class="diffchange diffchange-inline">peptides </del>that <del class="diffchange diffchange-inline">are not present in nature</del>. We then <del class="diffchange diffchange-inline">developed an algorithm that can learn from the various existing </del>antimicrobial peptides (AMP) databases. <a href="https://2013.igem.org/Team:TU-Delft/NovelPeptides" target="blank">This model</a> then <del class="diffchange diffchange-inline">suggests some </del>rules by which we manually designed 3 novel <del class="diffchange diffchange-inline">peptides. We considered also the effect of these peptides on humans to come up with safe </del>peptides. They were also tested on COS-1 cells to <del class="diffchange diffchange-inline">get an idea and </del>prove that they are not toxic to mammals. <del class="diffchange diffchange-inline">Thus, </del>safety <del class="diffchange diffchange-inline">was always our prime driver to have </del>a <del class="diffchange diffchange-inline">clean</del>, <del class="diffchange diffchange-inline">healthy </del>and <del class="diffchange diffchange-inline">harmless environment</del>.</p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p><ins class="diffchange diffchange-inline">In iGEM projects safety is usually 'added'. We took the new approach by changing the natural part itself to become more safe. Signiferin, the antimicrobial peptide used, is at a concentration of 100-150 μM toxic to simian cells. </ins>We as the team 'Peptidor' were curious and enthusiastic to make our own novel <ins class="diffchange diffchange-inline">peptide </ins>that <ins class="diffchange diffchange-inline">is less toxic to simian cells. This way the use of these peptides would be safer, since the toxicity for humans would be less</ins>. We then <ins class="diffchange diffchange-inline">used machine learning on </ins>antimicrobial peptides (AMP) databases. <a href="https://2013.igem.org/Team:TU-Delft/NovelPeptides" target="blank">This model</a> then <ins class="diffchange diffchange-inline">derived </ins>rules by which we manually designed 3 novel peptides. They were also tested on COS-1 cells to prove that they are <ins class="diffchange diffchange-inline">less </ins>not toxic to mammals <ins class="diffchange diffchange-inline">than signiferin</ins>. <ins class="diffchange diffchange-inline">This way the </ins>safety <ins class="diffchange diffchange-inline">is improved by altering the biological part (the antimicrobial peptide), which is </ins>a <ins class="diffchange diffchange-inline">noval approach on combining modeling</ins>, <ins class="diffchange diffchange-inline">human practice </ins>and <ins class="diffchange diffchange-inline">lab-work</ins>. </p></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><h2 align="center">Implications of project</h2></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2 align="center">Implications of project</h2></div></td></tr>
</table>Jfkooijmanhttp://2013.igem.org/wiki/index.php?title=Team:TU-Delft/novel_approach&diff=293856&oldid=prevJfkooijman at 14:30, 4 October 20132013-10-04T14:30:52Z<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 14:30, 4 October 2013</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><div style="margin-top:10px;margin-left:30px;margin-right:30px; margin-top=30px; float:left;display:inline-block;"> <br> </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><div style="margin-top:10px;margin-left:30px;margin-right:30px; margin-top=30px; float:left;display:inline-block;"> <br> </div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2 align="center">Novel approaches on Human Practice</h2></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2 align="center">Novel approaches on Human Practice</h2></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p align="justify">In the iGEM competition certain regions/continents (e.g. Africa and Latin America) have few teams and this over the past recent years. One of the reasons for this may be the lack of lab equipment for characterization. In our view, being able to participate in the iGEM competition should be accessible to everyone and the cost of equipment should not come to hinder creativity all over the world. <<del class="diffchange diffchange-inline">/p</del>></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p align="justify">In the iGEM competition certain regions/continents (e.g. Africa and Latin America) have few teams and this over the past recent years. One of the reasons for this may be the lack of lab equipment for characterization. In our view, being able to participate in the iGEM competition should be accessible to everyone and the cost of equipment should not come to hinder creativity all over the world. <<ins class="diffchange diffchange-inline">br</ins>></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del class="diffchange diffchange-inline"><p></del>Therefore we took a noval approach in the Human Practive to open op synthetic biology by designing a DIY lab device, a low cost fluorescent scanner, the <a href="https://2013.igem.org/Team:TU-Delft/Zephyr" target="blank">Zephyr</a>. The Zephyr is more affordable than the exciting fluorescence scanner Tyhpoon (1500 dollar vs. 120,000 dollars). Furthermore, we designed it in such a way that it is easy for everyone to build. This way research is made possible in places where people don't have access to the expensive instruments (ownership) and encourages the idea of resource and knowledge sharing.</p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>Therefore we took a noval approach in the Human Practive to open op synthetic biology by designing a DIY lab device, a low cost fluorescent scanner, the <a href="https://2013.igem.org/Team:TU-Delft/Zephyr" target="blank">Zephyr</a>. The Zephyr is more affordable than the exciting fluorescence scanner Tyhpoon (1500 dollar vs. 120,000 dollars). Furthermore, we designed it in such a way that it is easy for everyone to build. This way research is made possible in places where people don't have access to the expensive instruments (ownership) and encourages the idea of resource and knowledge sharing.</p></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p>We as the team 'Peptidor' were curious and enthusiastic to make our own novel peptides that are not present in nature. We then developed an algorithm that can learn from the various existing antimicrobial peptides (AMP) databases. <a href="https://2013.igem.org/Team:TU-Delft/NovelPeptides" target="blank">This model</a> then suggests some rules by which we manually designed 3 novel peptides. We considered also the effect of these peptides on humans to come up with safe peptides. They were also tested on COS-1 cells to get an idea and prove that they are not toxic to mammals. Thus, safety was always our prime driver to have a clean, healthy and harmless environment.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p>We as the team 'Peptidor' were curious and enthusiastic to make our own novel peptides that are not present in nature. We then developed an algorithm that can learn from the various existing antimicrobial peptides (AMP) databases. <a href="https://2013.igem.org/Team:TU-Delft/NovelPeptides" target="blank">This model</a> then suggests some rules by which we manually designed 3 novel peptides. We considered also the effect of these peptides on humans to come up with safe peptides. They were also tested on COS-1 cells to get an idea and prove that they are not toxic to mammals. Thus, safety was always our prime driver to have a clean, healthy and harmless environment.</p></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>
</table>Jfkooijmanhttp://2013.igem.org/wiki/index.php?title=Team:TU-Delft/novel_approach&diff=293849&oldid=prevJfkooijman at 14:30, 4 October 20132013-10-04T14:30:33Z<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 14:30, 4 October 2013</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><div style="margin-top:10px;margin-left:30px;margin-right:30px; margin-top=30px; float:left;display:inline-block;"> <br> </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><div style="margin-top:10px;margin-left:30px;margin-right:30px; margin-top=30px; float:left;display:inline-block;"> <br> </div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2 align="center">Novel approaches on Human Practice</h2></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2 align="center">Novel approaches on Human Practice</h2></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p align="justify"><del class="diffchange diffchange-inline">A novel approach </del>for <del class="diffchange diffchange-inline">human practice is essential </del>for <del class="diffchange diffchange-inline">attracting </del>the <del class="diffchange diffchange-inline">public </del>and <del class="diffchange diffchange-inline">help them in understanding </del>the <del class="diffchange diffchange-inline">importance </del>of <del class="diffchange diffchange-inline">synthetic biology</del>. <del class="diffchange diffchange-inline">In this way </del>we <del class="diffchange diffchange-inline">made our own </del>in<del class="diffchange diffchange-inline">-house Do it yourself (</del>DIY<del class="diffchange diffchange-inline">) </del>fluorescent scanner, the <a href="https://2013.igem.org/Team:TU-Delft/Zephyr" target="blank">Zephyr</a><del class="diffchange diffchange-inline">, that </del>is <del class="diffchange diffchange-inline">cheaper and </del>affordable than the <del class="diffchange diffchange-inline">existing fancy</del>, <del class="diffchange diffchange-inline">expensive devices </del>in <del class="diffchange diffchange-inline">the market</del>. This <del class="diffchange diffchange-inline">makes </del>research possible in places where people don't have access to <del class="diffchange diffchange-inline">these </del>expensive instruments<del class="diffchange diffchange-inline">. This </del>encourages the idea of resource and knowledge sharing.</p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p align="justify"><ins class="diffchange diffchange-inline">In the iGEM competition certain regions/continents (e.g. Africa and Latin America) have few teams and this over the past recent years. One of the reasons </ins>for <ins class="diffchange diffchange-inline">this may be the lack of lab equipment </ins>for <ins class="diffchange diffchange-inline">characterization. In our view, being able to participate in </ins>the <ins class="diffchange diffchange-inline">iGEM competition should be accessible to everyone </ins>and the <ins class="diffchange diffchange-inline">cost </ins>of <ins class="diffchange diffchange-inline">equipment should not come to hinder creativity all over the world</ins>. <ins class="diffchange diffchange-inline"></p></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 class="diffchange diffchange-inline"><p>Therefore </ins>we <ins class="diffchange diffchange-inline">took a noval approach </ins>in <ins class="diffchange diffchange-inline">the Human Practive to open op synthetic biology by designing a </ins>DIY <ins class="diffchange diffchange-inline">lab device, a low cost </ins>fluorescent scanner, the <a href="https://2013.igem.org/Team:TU-Delft/Zephyr" target="blank">Zephyr</a><ins class="diffchange diffchange-inline">. The Zephyr </ins>is <ins class="diffchange diffchange-inline">more </ins>affordable than the <ins class="diffchange diffchange-inline">exciting fluorescence scanner Tyhpoon (1500 dollar vs. 120</ins>,<ins class="diffchange diffchange-inline">000 dollars). Furthermore, we designed it </ins>in <ins class="diffchange diffchange-inline">such a way that it is easy for everyone to build</ins>. This <ins class="diffchange diffchange-inline">way </ins>research <ins class="diffchange diffchange-inline">is made </ins>possible in places where people don't have access to <ins class="diffchange diffchange-inline">the </ins>expensive instruments <ins class="diffchange diffchange-inline">(ownership) and </ins>encourages the idea of resource and knowledge sharing.</p></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p>We as the team 'Peptidor' were curious and enthusiastic to make our own novel peptides that are not present in nature. We then developed an algorithm that can learn from the various existing antimicrobial peptides (AMP) databases. <a href="https://2013.igem.org/Team:TU-Delft/NovelPeptides" target="blank">This model</a> then suggests some rules by which we manually designed 3 novel peptides. We considered also the effect of these peptides on humans to come up with safe peptides. They were also tested on COS-1 cells to get an idea and prove that they are not toxic to mammals. Thus, safety was always our prime driver to have a clean, healthy and harmless environment.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p>We as the team 'Peptidor' were curious and enthusiastic to make our own novel peptides that are not present in nature. We then developed an algorithm that can learn from the various existing antimicrobial peptides (AMP) databases. <a href="https://2013.igem.org/Team:TU-Delft/NovelPeptides" target="blank">This model</a> then suggests some rules by which we manually designed 3 novel peptides. We considered also the effect of these peptides on humans to come up with safe peptides. They were also tested on COS-1 cells to get an idea and prove that they are not toxic to mammals. Thus, safety was always our prime driver to have a clean, healthy and harmless environment.</p></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>
</table>Jfkooijmanhttp://2013.igem.org/wiki/index.php?title=Team:TU-Delft/novel_approach&diff=293706&oldid=prevJfkooijman at 14:23, 4 October 20132013-10-04T14:23:23Z<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 14:23, 4 October 2013</td>
</tr><tr><td colspan="2" class="diff-lineno">Line 9:</td>
<td colspan="2" class="diff-lineno">Line 9:</td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">A novel approach for human practice is essential for attracting the public and help them in understanding the importance of synthetic biology. In this way we made our own in-house Do it yourself (DIY) fluorescent scanner, the <a href="https://2013.igem.org/Team:TU-Delft/Zephyr" target="blank">Zephyr</a>, that is cheaper and affordable than the existing fancy, expensive devices in the market. This makes research possible in places where people don't have access to these expensive instruments. This encourages the idea of resource and knowledge sharing.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">A novel approach for human practice is essential for attracting the public and help them in understanding the importance of synthetic biology. In this way we made our own in-house Do it yourself (DIY) fluorescent scanner, the <a href="https://2013.igem.org/Team:TU-Delft/Zephyr" target="blank">Zephyr</a>, that is cheaper and affordable than the existing fancy, expensive devices in the market. This makes research possible in places where people don't have access to these expensive instruments. This encourages the idea of resource and knowledge sharing.</p></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p>We as the team 'Peptidor' were curious and enthusiastic to make our own novel peptides that are not present in nature. We then developed an algorithm that can learn from the various existing antimicrobial peptides (AMP) databases. <a href="https://2013.igem.org/Team:TU-Delft/NovelPeptides" target="blank">This model</a> then suggests some rules by which we manually designed 3 novel peptides. We considered also the effect of these peptides on humans to come up with safe peptides. They were also tested on COS-1 cells to get an idea and prove that they are not toxic to mammals. Thus, safety was always our prime driver to have a clean, healthy and harmless environment.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p>We as the team 'Peptidor' were curious and enthusiastic to make our own novel peptides that are not present in nature. We then developed an algorithm that can learn from the various existing antimicrobial peptides (AMP) databases. <a href="https://2013.igem.org/Team:TU-Delft/NovelPeptides" target="blank">This model</a> then suggests some rules by which we manually designed 3 novel peptides. We considered also the effect of these peptides on humans to come up with safe peptides. They were also tested on COS-1 cells to get an idea and prove that they are not toxic to mammals. Thus, safety was always our prime driver to have a clean, healthy and harmless environment.</p></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del class="diffchange diffchange-inline"><br><br></del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div> </div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2 align="center">Implications of project</h2></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2 align="center">Implications of project</h2></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">Our project has strong implications on environment , security and safety. The main aim of our project is to have an novel approach to combat MRSA (Methicillin Resistant <i>Staphylococcus aureus</i>). This, clearly suggests that the safety, security and environmental issues that might arise, should to be addressed in an convincing manner.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">Our project has strong implications on environment , security and safety. The main aim of our project is to have an novel approach to combat MRSA (Methicillin Resistant <i>Staphylococcus aureus</i>). This, clearly suggests that the safety, security and environmental issues that might arise, should to be addressed in an convincing manner.</p></div></td></tr>
</table>Jfkooijmanhttp://2013.igem.org/wiki/index.php?title=Team:TU-Delft/novel_approach&diff=292291&oldid=prevMaithiliKrishnan at 13:07, 4 October 20132013-10-04T13:07:19Z<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 13:07, 4 October 2013</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><div style="margin-top:10px;margin-left:30px;margin-right:30px; margin-top=30px; float:left;display:inline-block;"> <br> </div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><div style="margin-top:10px;margin-left:30px;margin-right:30px; margin-top=30px; float:left;display:inline-block;"> <br> </div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2 align="center">Novel approaches on Human Practice</h2></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2 align="center">Novel approaches on Human Practice</h2></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p align="justify">A novel approach for human practice is essential for attracting the public and help them in understanding the importance of synthetic biology. In this way we made our own in-house Do it yourself (DIY) fluorescent scanner, the <a href="https://2013.igem.org/Team:TU-Delft/Zephyr" target="blank">Zephyr</a>, that is cheaper and affordable than the existing fancy, expensive devices in the market. <del class="diffchange diffchange-inline">They make </del>research possible in places where people don't have access to these expensive instruments. <del class="diffchange diffchange-inline">These </del>encourages the idea of resource and knowledge sharing.</p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p align="justify">A novel approach for human practice is essential for attracting the public and help them in understanding the importance of synthetic biology. In this way we made our own in-house Do it yourself (DIY) fluorescent scanner, the <a href="https://2013.igem.org/Team:TU-Delft/Zephyr" target="blank">Zephyr</a>, that is cheaper and affordable than the existing fancy, expensive devices in the market. <ins class="diffchange diffchange-inline">This makes </ins>research possible in places where people don't have access to these expensive instruments. <ins class="diffchange diffchange-inline">This </ins>encourages the idea of resource and knowledge sharing.</p></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p>We as the team 'Peptidor' were curious and enthusiastic to make our own novel peptides that are not present in nature. We then developed an algorithm that can learn from the various existing antimicrobial peptides (AMP) databases. <a href="https://2013.igem.org/Team:TU-Delft/NovelPeptides" target="blank">This model</a> then suggests some rules by which we manually designed 3 novel peptides. We considered also the effect of these peptides on humans to come up with safe peptides. They were also tested on COS-1 cells to get an idea and prove that they are not toxic to mammals. Thus, safety was always our prime driver to have a clean, healthy and harmless environment.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p>We as the team 'Peptidor' were curious and enthusiastic to make our own novel peptides that are not present in nature. We then developed an algorithm that can learn from the various existing antimicrobial peptides (AMP) databases. <a href="https://2013.igem.org/Team:TU-Delft/NovelPeptides" target="blank">This model</a> then suggests some rules by which we manually designed 3 novel peptides. We considered also the effect of these peptides on humans to come up with safe peptides. They were also tested on COS-1 cells to get an idea and prove that they are not toxic to mammals. Thus, safety was always our prime driver to have a clean, healthy and harmless environment.</p></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><br><br></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><br><br></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2 align="center">Implications of project</h2></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><h2 align="center">Implications of project</h2></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">Our project has strong implications on environment , security and safety. The main aim of our project is to have an novel approach to combat MRSA (Methicillin Resistant <i>Staphylococcus aureus</i>). This, clearly suggests that the safety, security and environmental issues that might arise, should to be addressed in an convincing manner.</p></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div><p align="justify">Our project has strong implications on environment , security and safety. The main aim of our project is to have an novel approach to combat MRSA (Methicillin Resistant <i>Staphylococcus aureus</i>). This, clearly suggests that the safety, security and environmental issues that might arise, should to be addressed in an convincing manner.</p></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p>The safety and security issues were considered for choosing some bacterial strains that were in need for our project. We had a detailed discussion with our Bio safety Officer (BVF), as we need to fight <del class="diffchange diffchange-inline"> </del>MRSA. She suggested us to use closely related species of BSL-1, as we have only the permit to work with BSL-1 strains. We then used the closely related species <i>S. delphini</i> (DSMZ 20771) which was listed in BSL-1 permit to carry out our minimum inhibitory concentration (MIC) tests.</p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p>The safety and security issues were considered for choosing some bacterial strains that were in need for our project. We had a detailed discussion with our Bio safety Officer (BVF), as we need to fight MRSA. She suggested us to use closely related species of BSL-1, as we have only the permit to work with BSL-1 strains. We then used the closely related species <i>S. delphini</i> (DSMZ 20771) which was listed in BSL-1 permit to carry out our minimum inhibitory concentration (MIC) tests.</p></div></td></tr>
<tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><p>The <del class="diffchange diffchange-inline">lab workers </del>security was considered <del class="diffchange diffchange-inline">when we chose the </del>natural peptides. They were chosen not to harm the people working with it and the surroundings. The environmental security was considered to be the most crucial feature of our project. The ultimate application of our project will be a 'Band Aid' having our engineered bacteria. This rises plenty of environmental <a href="https://2013.igem.org/Team:TU-Delft/Safety" target="blank">safety</a> & security concerns on the use and disposal of genetically modified organisms (GMO). To address these concerns, we used a kill switch, BBa_K112808 that was engineered by UC Berkley 2008 iGEM team. The cells undergo autolysis once the required target protein is produced in required quantities.</p></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><p>The security <ins class="diffchange diffchange-inline">of the people working in lab </ins>was considered <ins class="diffchange diffchange-inline">as at most high priority while choosing to work with </ins>natural peptides. They were chosen not to harm the people working with it and the surroundings. The environmental security was considered to be the most crucial feature of our project. The ultimate application of our project will be a 'Band Aid' having our engineered bacteria. This rises plenty of environmental <a href="https://2013.igem.org/Team:TU-Delft/Safety" target="blank">safety</a> & security concerns on the use and disposal of genetically modified organisms (GMO). To address these concerns, we used a kill switch, BBa_K112808 that was engineered by UC Berkley 2008 iGEM team. The cells undergo autolysis once the required target protein is produced in required quantities.</p></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></html></div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div></html></div></td></tr>
</table>MaithiliKrishnan