- Analyze the effect of network topology or signal strength on a published multi-oscillator model of the mammalian circadian clock
Papers to get you started:
- Analyze the parametric sensitivity of multiple models of the same organism and compare the results. Are any design principles revealed? For example, are the results consistent with those of Stelling et al (i.e. the global/local/mixed hypothesis)?
Here is another model anaylysis/comparison paper to consider. It is a follow-up to Goldbeter's fly model paper: Gerard et al, Phil Trans R Soc, 2009 and illustrates different design principles.
Instead of classical sensitivity analysis, you could use an oscillator-specific phase sensitivity analysis, like this one: Taylor et al, IEEE Trans Automat Contrl, 2008.
Here are some fly model papers to get you started:
- Bagheri et al, J Biol Rhythm, 2008
- Ueda et al, J Theor Biol, 2001
- Xie & Kulasiri, J Theor Biol, 2007
Here are some Neurospora (a fungus) papers to get you started:
- Augment an existing model to take into account new experimental evidence.
- Apply an optimization-based model reduction algorithm to additional models of the mammalian circadian clock
A paper to get you started: