Difference between revisions of "Team:Warwick/Modelling4"

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<h5 class="sidebartitle">Minimum E.coli for Image</h5>
 
<h5 class="sidebartitle">Minimum E.coli for Image</h5>
 
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<p style="float: right;"><img src="https://static.igem.org/mediawiki/2015/5/5f/WarwickCellnumber.png" align="right" height="350px" width="350px" border="1px"></p>
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The image on the left shows how the E.coli will bond to the DNA Origami structures. We can choose what zinc fingers go on what end of the structures so we could have a pattern in the origami structure. This is useful for analysing microbial communities as it allows different cell types to be brought together.
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The image on the left shows the minimum number of cells needed to produce a clear image with a discernible shape. For this we looked at simple shapes to see how complexity increased the number of cells or pixels needed.
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<br>It would be possible to create 2D and 3D structures using these Origami structures as a glue to hold the cells together but would require hundreds of different zinc fingers to prevent the wrong parts being bonded to one another.
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<br> The image on the right shows the increase of E.coli cells needed to make a shape. The the number of cells per shape follows a linear progression, proportional to the number of sides that the shape has. A basic first order, linear differntial equation would be                                                                            
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<br>This shows how a simple shape could be made by using E.coli (black squares) by connecting them with DNA origami (red crosses). In order for a shape to be made each piece of E.coli needs to express a different zinc finger so that it can only be bonded to a specific piece of origami (no non-specific bonding).
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<br>We only have four zinc fingers which means that we don’t have many options for patterns we could make, but given enough time and resources we could easily optimise more zinc fingers so more complex shapes could be made.
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C=13(S-2)+12, where C is the approximate number of cells needed to make that shape and S is the number of sides of the shape.
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<br>Future iGEM teams could create more zinc fingers which could be combined with our structures so that as time prgresses a database of different shaped and sized oligonucleotide adehsives can be made. Our project could then be used as a stepping stone to create complex 2D and eventually 3D shapes and structures.
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Revision as of 11:37, 6 August 2015

Warwick iGEM 2015

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DNA Beading

Minimum E.coli for Image

The image on the left shows the minimum number of cells needed to produce a clear image with a discernible shape. For this we looked at simple shapes to see how complexity increased the number of cells or pixels needed.
The image on the right shows the increase of E.coli cells needed to make a shape. The the number of cells per shape follows a linear progression, proportional to the number of sides that the shape has. A basic first order, linear differntial equation would be C=13(S-2)+12, where C is the approximate number of cells needed to make that shape and S is the number of sides of the shape.

DNA Beading

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.

Primer Sequences for Beads

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