Team:Mexico-UNAM-CINVESTAV/Human Practices/Collaboration


Revision as of 18:06, 26 October 2010 by JOSE (Talk | contribs)

This year we think was the most collaborative one. there were plenty of surveys, meetings and intense information exchange. Next we describe all the

Our team participated in different surveys:

  • Warsaw Team
  • METU_Turkey_Software Team
  • University of Edimburg iGEM Team

We also made a contribution to the UNAM Genomics Team modeling, by proposing a mathematical model of their three component positive feedback network.

UNAM Genomics Mexico


The system our countrymen asked us to model was a three element positive feedback loop. They expected us to find an oscillatory behaviour in time between the concentration of the three substances.

img(ciclo d genomicos)

  • Cycle
  • Positive Feedback
  • Kind of Repressilator system

Linear model

We proposed a linear model thinking in a first approach to solve the problem. For each of the rate of change of the concentration in time there is a dependance with the substance itself and with one of the other substances. These dependances are cyclic.

Sistema LinealT1.png

Sistema Lineal1.png

Sistema LinealT2.png

Sistema Lineal2.png

Linear Simulation

The resulting dynamics of these equations are represented in the following images.

Figura1 lineal.jpg Figura2 lineal.jpg Figura3 lineal.jpg Figura4 lineal.jpg

In these images we observe that the system only posses an stable equilibrium point.

Non Linear Model

By making the model a little more realistic we added another form of dependance of the substance concentration change in time. We also added a saturation term and a degradation term.

Sistema No LinealT.png


Non Linear Simulation

In the following images we appreciate that there is a bifurcation point such that we obtain two different dynamics, one in which the system saturates and other in which the substances concentration reaches the zero value.

Figura1 nolineal.jpg Figura2 nolineal.jpg Figura3 nolineal.jpg


With the two approaches above we did not obtained an oscillatory behavior as expected. Nevertheless, an idea emerged from the team. There could be an use for the dynamics we encountered. The idea was to 'reset' the system every certain amount of time. This 'pacemaker' system looks like this:



We want to thank all the team members that answered our own survey which was about intellectual property.

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