Difference between revisions of "Team:Warwick/Modelling2"
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<p> This deals with the issue of creating 2D and possibly 3D shapes without excessive waste of DNA. It does this by sticking cells together using DNA Origami as a glue. DNA origami is a method of creating shapes out of DNA by designing strands of DNA to be complementary to one another so that when they are put together and denatured and annealed they form a shape. </p> | <p> This deals with the issue of creating 2D and possibly 3D shapes without excessive waste of DNA. It does this by sticking cells together using DNA Origami as a glue. DNA origami is a method of creating shapes out of DNA by designing strands of DNA to be complementary to one another so that when they are put together and denatured and annealed they form a shape. </p> | ||
| − | <h5 | + | <p>_______________________________________________________________________________________________________________________________________</p><h5>How it would work</h5> |
<p> | <p> | ||
<p style="float: right;"><img src="https://static.igem.org/mediawiki/2015/4/4e/Warwickh.png" align="right" height="150px" width="150px" border="1px"></p> | <p style="float: right;"><img src="https://static.igem.org/mediawiki/2015/4/4e/Warwickh.png" align="right" height="150px" width="150px" border="1px"></p> | ||
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</p> | </p> | ||
| − | <h5 | + | <p>_______________________________________________________________________________________________________________________________________</p><h5>DNA Origami</h5> |
<p> | <p> | ||
<img src="https://static.igem.org/mediawiki/2015/9/94/WarwickDna_origami_ic.png" class="pics" alt=""> This shows how the DNA strands come together. Three double stranded strings of DNA are denatured and then when slowly cooled will come together to form the Y shape. However after the denaturing each strand of DNA has an equal chance of bonding to the original piece of DNA as it does to the correct origami side. Therefore the more complex the structure the less likely it is that that structure will fully form. | <img src="https://static.igem.org/mediawiki/2015/9/94/WarwickDna_origami_ic.png" class="pics" alt=""> This shows how the DNA strands come together. Three double stranded strings of DNA are denatured and then when slowly cooled will come together to form the Y shape. However after the denaturing each strand of DNA has an equal chance of bonding to the original piece of DNA as it does to the correct origami side. Therefore the more complex the structure the less likely it is that that structure will fully form. | ||
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| − | <h5 | + | <p>_______________________________________________________________________________________________________________________________________</p><h5>Minimum Size of Plasmids</h5> |
<p> | <p> | ||
It is paramount that the length of the plasmid arms are kept to a minimum length as the longer the arms the more unstable the resulting structure will be. It would also take a longer time to form and would have a lower probability of formation. However if the plasmid arms are kept to the smallest possible size it decreases the likelihood of the correct number of <i>E.coli</i> cells bonding to the ends (we have assumed that the ends of the <i>E.coli</i> are perfect spheres and will bond in the centre- if this is not the case the you will need an extra length to accommodate. We calculated 30% would be the optimum error margin to add). <br> Obviously calculating the plasmid sizes is very important then as it dictates cost and efficiency. The cube construction page explains how this was done. | It is paramount that the length of the plasmid arms are kept to a minimum length as the longer the arms the more unstable the resulting structure will be. It would also take a longer time to form and would have a lower probability of formation. However if the plasmid arms are kept to the smallest possible size it decreases the likelihood of the correct number of <i>E.coli</i> cells bonding to the ends (we have assumed that the ends of the <i>E.coli</i> are perfect spheres and will bond in the centre- if this is not the case the you will need an extra length to accommodate. We calculated 30% would be the optimum error margin to add). <br> Obviously calculating the plasmid sizes is very important then as it dictates cost and efficiency. The cube construction page explains how this was done. | ||
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| − | <h5 | + | <p>_______________________________________________________________________________________________________________________________________</p><h5>Probability of Formation</h5> |
<p> | <p> | ||
<p style="float: right;"><img src="https://static.igem.org/mediawiki/2015/2/2c/WarwickProbabilityofformation.png" align="right" height="300px" width="440px" border="1px"></p> | <p style="float: right;"><img src="https://static.igem.org/mediawiki/2015/2/2c/WarwickProbabilityofformation.png" align="right" height="300px" width="440px" border="1px"></p> | ||
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<p style="float: right;"> | <p style="float: right;"> | ||
</p> | </p> | ||
| − | <h5 | + | <p>_______________________________________________________________________________________________________________________________________</p><h5>Origami Alternative</h5> |
<p> | <p> | ||
<p style="float: left;"><img src="https://static.igem.org/mediawiki/2015/d/dd/WarwickOrigamifinal.png" height="350px" width="1100px" border="1px"></p> | <p style="float: left;"><img src="https://static.igem.org/mediawiki/2015/d/dd/WarwickOrigamifinal.png" height="350px" width="1100px" border="1px"></p> | ||
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<br> | <br> | ||
<br><br><br> | <br><br><br> | ||
| − | + | <p>_______________________________________________________________________________________________________________________________________</p> | |
<div class="sectiontitle"> | <div class="sectiontitle"> | ||
<h4>DNA Origami Glue Sequences</h4> | <h4>DNA Origami Glue Sequences</h4> | ||
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| − | <h5 | + | <p>_______________________________________________________________________________________________________________________________________</p><h5>BBa_K314110</h5> |
<p> | <p> | ||
<p style="float: right;"><img src="https://static.igem.org/mediawiki/2015/c/c8/WarwickSequencesfor3.png" align="right" height="300px" width="440px" border="1px"></p> | <p style="float: right;"><img src="https://static.igem.org/mediawiki/2015/c/c8/WarwickSequencesfor3.png" align="right" height="300px" width="440px" border="1px"></p> | ||
Revision as of 20:37, 17 September 2015
This shows how the DNA strands come together. Three double stranded strings of DNA are denatured and then when slowly cooled will come together to form the Y shape. However after the denaturing each strand of DNA has an equal chance of bonding to the original piece of DNA as it does to the correct origami side. Therefore the more complex the structure the less likely it is that that structure will fully form.
