Team:ETH Zurich/Achievements

From 2011.igem.org

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* We made a [[Team:ETH_Zurich/Modeling/Microfluidics|'''reaction-diffusion model''']] for the toxic molecule gradient formation in a channel and got a feeling about the feasibility of our ideas and channel dimensions.
* We made a [[Team:ETH_Zurich/Modeling/Microfluidics|'''reaction-diffusion model''']] for the toxic molecule gradient formation in a channel and got a feeling about the feasibility of our ideas and channel dimensions.
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* We approximated the [['''gradient analytically'''|Team:ETH_Zurich/Modeling/Analytical_Approximation#Analytical_Solution]] and checked that it coincides with the '''[[numerically|Team:ETH_Zurich/Modeling/Analytical_Approximation#Analytical_Solution]]''' obtained one. Additionally, we gave an analytical criterion for the existence of the GFP band.
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* We approximated the '''[[Team:ETH_Zurich/Modeling/Analytical_Approximation#Analytical_Solution|gradient analytically]]''' and checked that it coincides with the '''[[Team:ETH_Zurich/Modeling/Analytical_Approximation#Analytical_Solution|numerically]]''' obtained one. Additionally, we gave an analytical criterion for the existence of the GFP band.
* We made a [[Team:ETH_Zurich/Modeling/SingleCell|'''single cell model''']] describing our circuit and verified its operation.
* We made a [[Team:ETH_Zurich/Modeling/SingleCell|'''single cell model''']] describing our circuit and verified its operation.
* We performed a [[Team:ETH_Zurich/Modeling/Analysis|'''robustness analysis''']] of our system to see how the band behaves upon parameter variations and concluded that it is robust and monostable.
* We performed a [[Team:ETH_Zurich/Modeling/Analysis|'''robustness analysis''']] of our system to see how the band behaves upon parameter variations and concluded that it is robust and monostable.

Revision as of 02:55, 29 October 2011

Can you feel the smoke tonight?
 

Contents

SmoColi - Achievements


Modeling

  • We made a reaction-diffusion model for the toxic molecule gradient formation in a channel and got a feeling about the feasibility of our ideas and channel dimensions.
  • We approximated the gradient analytically and checked that it coincides with the numerically obtained one. Additionally, we gave an analytical criterion for the existence of the GFP band.
  • We made a single cell model describing our circuit and verified its operation.
  • We performed a robustness analysis of our system to see how the band behaves upon parameter variations and concluded that it is robust and monostable.
  • We performed stochastic analysis to see how the GFP band reacts upon noise and confirmed one more time its robustness
  • We integrated the single cell model and the reaction-diffusion model in a combined 3D spatiotemporal reaction-diffusion model, simulated for various channel dimensions to get a feeling how the GFP band will move and how the alarm is activated
  • We extracted some information about the channel dimensions from the model and used this information in the actual channel design.


Biology

  • After severe cloning difficulties (due to unexpected lethality of active CI and LacI), the final system was completely established.
  • We improved the pSB6A1 Plasmid to standard 5: [http://partsregistry.org/Part:BBa_K625005 pSB6A5]
  • We created the [http://partsregistry.org/Part:BBa_K625000 BioBrick LacIM1] which is a codon modified LacI for multiplasmid operations
  • We created two improved version of the PU BioBrick, characterized the PU promoter and fitted a dose response curve to the data
  • We characterized the PBAD dose response for homogenous expression of the PBAD in BW27783
  • We successfully tested the channel in terms of cell viability and GFP synthesis
  • We could established a gradient of a small molecule (IPTG and arabinose) in a tube and also in the microfluidic channel


Microfluidics


Human Practices

  • We presented Synthetic Biology and iGEM to our fellow students in the CBB get together afternoon.
  • We presented iGEM and our project to the general public on the BSSE Open House Day through a poster and a slide show.
  • We also made a survey with critical questions related to Synthetic Biology and iGEM, asked people to fill it out and analyzed the results.
  • ETH GLOBE and NZZ (Neue Zeitung Zürich) will write about our participation at iGEM World Championship Jamboree
  • We helped the Edinburgh 2011 iGEM team with debugging their MATLAB cellulase model.


Collaboration


Personal achievements

  • xx managed to move the Dropbox folder to another location, thus making it look empty for the others.
  • xx accidentally modified an other teams wiki for 1 min
  • xx and xy slept the whole boat trip in Amsterdam
  • xy found a mistake in the PowerPoint in the morning before the presentation ("And the channel turns read")
  • xy managed to sleep at two chairs in the lab
  • We had fun!


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