Team:ETH Zurich/labblog/20140829mod

Finding integrase parameters

In order to predict accurately the experiments we designed, we defined two different strategies to retrieve parameters for the integrase system.

As we did not find these parameters on the web, we used the data given by the Bonnet paper "Amplifying genetic logic gates". The figure S4 is particularly interesting, even if it does not give any information on the dynamics of the system. We modeled and wrote the equations corresponding to Bonnet's experiment. We then considered the steady state behavior of the dynamic system.

To fit the parameters with the data, we first try to use a minimum search for the difference between the data and the parametric function. Then, using these first approximations, we tried to do a Markov Chain Monte Carlo approach to find a more suited curve.

As these two methods are strongly prior dependent, we planned another step of screening in order to have meaningful results.