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Revision as of 14:21, 31 July 2010

Modeling of the light-input, light-output system

The light-input, light-output system PIF3-PhyB will be used to control spatial localization of key-proteins from chemotaxis. A model will be implemented according to a recent publication: [1].

Goals

1. Implement original model
   1. Plot Figure 6a & 7a from [1] - OK
2. Adapt model to experimental setup - Problems
3. Link model to chemotaxis ODE models

Status

Please find the current version on the SVN-Server.

• (7/25): (SVN rev. 3) start development by George
• (7/27): (SVN rev. 4) original model partly implemented, not yet working (Goal 1.1)
• (7/28): (SVN rev. 5) original model partly implemented, so far working: Goal 1.1 reached
• (7/31): (SVN rev. 6) first attempts to set light-conditions according to experimental setups (Goal 2)

Tasks

• Verification & Discussion

I will continue to work on this model the whole week. If you would like to help, please check the SVN server for the current version and send me an email regarding your participation.

Results

Goal 1

The original model was partly implemented and corresponding qualitative plots 6a and 7a have been computed.

Figure 6a

Figure 7a

Goal 2

Light conditions were set according to first thoughts in Spiro and Mello models. Unfortunately, this doesn't result in usable concentration changes. There is possibly a bug somewhere, or we have to redefine the experimental setup.

Figure 6a

Figure 7a

References

[1] [http://www.jbioleng.org/content/3/1/15 Sorokina et al: A switchable light-input, light-output system modelled and constructed in yeast. J Biol Eng. 2009 Sep 17;3:15.]