Difference between revisions of "Team:Warwick/Modeling"
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<p><a href="BindingAffinity"><h5>Binding Affinity Modelling</h5><p style="float: left;"><img src="https://static.igem.org/mediawiki/2015/6/66/Warwickmodeling5.png" align="right" height="100px" width="100px" border="1px"></p></p> </a> | <p><a href="BindingAffinity"><h5>Binding Affinity Modelling</h5><p style="float: left;"><img src="https://static.igem.org/mediawiki/2015/6/66/Warwickmodeling5.png" align="right" height="100px" width="100px" border="1px"></p></p> </a> | ||
| − | A big problem biologists encounter is the uncertainty of bonding especially in our design where zinc fingers bind to their sites. Therefore it is important to come up with a model which can calculate the number of cell and zinc finger binding sites required for a given output. This page discusses this and shows a program designed to dictate concentrations for the biologists to use.< | + | A big problem biologists encounter is the uncertainty of bonding especially in our design where zinc fingers bind to their sites. Therefore it is important to come up with a model which can calculate the number of cell and zinc finger binding sites required for a given output. This page discusses this and shows a program designed to dictate concentrations for the biologists to use. |
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Once we had a method of calculating the concentration of cells needed we had to model the number of cells required to make a certain shape. We also needed to invent a novel approach to creating 2D shapes using cells, this page discusses bonding them to a longer string of DNA to form a pattern. | Once we had a method of calculating the concentration of cells needed we had to model the number of cells required to make a certain shape. We also needed to invent a novel approach to creating 2D shapes using cells, this page discusses bonding them to a longer string of DNA to form a pattern. | ||
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<p><a href="Modelling2"><h5>DNA Origami Glue Modelling</h5><p style="float: left;"><img src="https://static.igem.org/mediawiki/2015/7/74/WarwickE.coli_Bonded_to_Origami.png" align="right" height="100px" width="100px" border="1px"></p></p> </a> | <p><a href="Modelling2"><h5>DNA Origami Glue Modelling</h5><p style="float: left;"><img src="https://static.igem.org/mediawiki/2015/7/74/WarwickE.coli_Bonded_to_Origami.png" align="right" height="100px" width="100px" border="1px"></p></p> </a> | ||
After the inherent problems and issues found from using the first model of 2D shapes we came up with a second, which discusses the use of DNA as an oligonucleotide adhesive to create 2D and 3D structures and shapes.<br> | After the inherent problems and issues found from using the first model of 2D shapes we came up with a second, which discusses the use of DNA as an oligonucleotide adhesive to create 2D and 3D structures and shapes.<br> | ||
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The previous model works but would change over time as the cells grow. To combat this we came up with a model to shows cell growth which could then be used to come up with starting pattern for the previous model so that the interactions remain contant over time. | The previous model works but would change over time as the cells grow. To combat this we came up with a model to shows cell growth which could then be used to come up with starting pattern for the previous model so that the interactions remain contant over time. | ||
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<p><a href="modelling3"><h5>Tetrahedron Construction</h5><p style="float: left;"><img src="https://static.igem.org/mediawiki/2015/0/05/WarwickCaddy.png" align="right" height="100px" width="100px" border="1px"></p></p> </a> | <p><a href="modelling3"><h5>Tetrahedron Construction</h5><p style="float: left;"><img src="https://static.igem.org/mediawiki/2015/0/05/WarwickCaddy.png" align="right" height="100px" width="100px" border="1px"></p></p> </a> | ||
The previous model of using DNA as a glue could create 3D shapes but would need vast amounts of unique zinc fingers. This wasn't possible with our time frame so we cam up with a model which could create a 3D structure from the minimum amount of unique DNA using tetrahedrons as a base to build from. Cells would then be bound to the outside.<br> | The previous model of using DNA as a glue could create 3D shapes but would need vast amounts of unique zinc fingers. This wasn't possible with our time frame so we cam up with a model which could create a 3D structure from the minimum amount of unique DNA using tetrahedrons as a base to build from. Cells would then be bound to the outside.<br> | ||
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The tetrahedron construction model could only create sphere shaped 3D structures. The cells that bound to the outside couldn't be controlled as well as we hoped so we came up with a new model that could. This page discusses the use of cube shaped DNA to create a shape where the cells bonded to the outside could be chosen.<br><br> | The tetrahedron construction model could only create sphere shaped 3D structures. The cells that bound to the outside couldn't be controlled as well as we hoped so we came up with a new model that could. This page discusses the use of cube shaped DNA to create a shape where the cells bonded to the outside could be chosen.<br><br> | ||
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Once we had an idea of how we could create small shapes using cells we wanted a quick overview how larger objects could be made. This discusses the different possibilities of the creation of 3D structures and shapes in a general sense, using different forms of bio-printng.<br><br> | Once we had an idea of how we could create small shapes using cells we wanted a quick overview how larger objects could be made. This discusses the different possibilities of the creation of 3D structures and shapes in a general sense, using different forms of bio-printng.<br><br> | ||
| − | + | <p><img src="https://static.igem.org/mediawiki/2015/c/c4/Warwickbubbles8.png" height="120px" width="800px" border="1px"></p> | |
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Revision as of 13:03, 17 September 2015
