Revision as of 09:35, 19 August 2013 by Jfkooijman (Talk | contribs)


Modeling is the bridge between science and engineering in this project; using the scientific knowledge on our system, we can describe how the system will act and interact. Furthermore, using the qualitative relations derived from the models the circuit has been adjusted and redesigned. This description is used for predicting what will happen in the lab, but also if the project can be applied in reality in a 'band-aid' product. Next to giving a preliminary design of the band-aid, new peptides are designed to give us the properties we want for this application.

Circuit modeling

In order to simplify the modeling of the complete circuit, we splitted it up into three different modules which were used as building blocks for the final model:

  1. Timer plus SUMO
  2. Kill Switch
  3. Timer-SUMO-KillSwitch (total circuit)

Moreover, we performed sensitivity analysis in order to investigate which parameters most influence our models.

Peptide synthesis

We also decided to design novel peptides, which meet our specific needs: very toxic for S.aureus (very low MIC), not toxic for humans and E.coli. These properties we also had in mind by choosing from the existing peptides, but the matching peptides did not met the requirements that well. In order to manage this, we performed data analysis and feature extraction of the existing experimentally validated datasets combined with associaton rule mining.

Band-aid modeling