Judging

Bronze

Team registered and ready for Jamboree
Wiki and posters finished (see us and our poster in zone 5 in Hall D on the second floor, stall 259)
Presentation ready and waiting
Check in, safety and judging forms completed
Parts documented on and samples submitted to Registry
Attributions done on attributions page
Added to characterisation of BBa_J23111, BBa_K808000 and BBa_E0040
Completed InterLab measurements

Attribution: logo © CC BY 2.0

Silver

Characterized our 15b-GFP toehold switch and it works
Added our parts to the registry
We collaborated with Judd-UK, Westminster, Carroll HS, EPFL and Oxford
Detailed silver human practices and plenty of engagement, including creating the high school teams guide.

Gold

Integrated human practices into every part of the project
Improved the design of Aachen’s fluorometer, and then built our own
Modeled just about everything - including the structure of our switches, the reaction kinetics, the uncertainties on our model and the cost-effectiveness of a screening programme with our test.
We’ve demonstrated it all works

Attribution: logo © CC BY 2.0

Key Papers

We have cited loads of papers in our wiki which makes it hard to see which ones are the most important. To make it easier for anyone reviewing our project, or wanting to get a better understanding into the principles off which our project is based, we have compiled the following list. Below are the papers which were key to our project design.

Toehold Switches, their design and use

Green, A. A., Silver, P. A., Collins, J. J., & Yin, P. (2014). Toehold switches: de-novo-designed regulators of gene expression. Cell, 159(4), 925-939. DOI: 10.1016/j.cell.2014.10.002
Green, A. A., Kim, J., Ma, D., Silver, P. A., Collins, J. J., & Yin, P. (2016, September). Ribocomputing devices for sophisticated in vivo logic computation. In Proceedings of the 3rd ACM International Conference on Nanoscale Computing and Communication (p. 11). ACM. DOI: 10.1145/2967446.2970373
Pardee, K., Green, A. A., Takahashi, M. K., Braff, D., Lambert, G., Lee, J. W., ... & Daringer, N. M. (2016). Rapid, low-cost detection of Zika virus using programmable biomolecular components. Cell, 165(5), 1255-1266. DOI: 10.1016/j.cell.2016.04.059
Machinek, R. R., Ouldridge, T. E., Haley, N. E., Bath, J., & Turberfield, A. J. (2013). Programmable energy landscapes for kinetic control of DNA strand displacement. Nature communications, 5, 5324-5324. DOI: 10.1038/ncomms6324

Micro-RNAs as Biomarkers

Hennessey, P. T., Sanford, T., Choudhary, A., Mydlarz, W. W., Brown, D., Adai, A. T., ... & Califano, J. A. (2012). Serum microRNA biomarkers for detection of non-small cell lung cancer. PloS one, 7(2), e32307. DOI: 10.1371/journal.pone.0032307
Etheridge, A., Lee, I., Hood, L., Galas, D., & Wang, K. (2011). Extracellular microRNA: a new source of biomarkers. Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis, 717(1), 85-90. DOI: 10.1016/j.mrfmmm.2011.03.004

Wiki

TODO: Write about how our wiki is so good with SVGs, compressed images, correctly sized iamges, lots of reviewing of text (maybe a fact about the total number of comments?), how we thought about the navbar, consistent style, used mediawiki templates, shared our knowledge with other teams (Caroll, Westminster, Judd)

All our code was written by current team members, except the small bits otherwise attributed. All images which we didn't make ourselves are attributed beneath the image. Images without explicit licenses are reproduced with written consent of the rights holders.

Jamboree

Come visit our stall - we are in zone 5 in Hall D on the second floor, stall 259

Presentation

Come watch our presentation at 3:30 on Friday in Ballroom B.

Team:CLSB-UK/Judging

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