IGEM:IMPERIAL/2006/project/Oscillator/project browser/Test Sensing Predator Construct/Modelling
|Super Parts||Predator Construct|
Model assumptions and relevance
- General assumptions on gene expression modelling:
- Quasi-steady state hypothesis on mRNA expression.
- Gene activation can be approximated by Hill equations.
- Assumptions linked to the quorum sensing:
- As a first approximation, we assume that luxR and AHL molecules form a heterodimer (even if it has been found that the complex formed is more complicated).
- The degradation rate of luxR and aiiA is mainly due to the growth dilution.
Model description of the oscillator
Model description of the growth of the predator
- mathematical description of the predator growth and death:
- insert a graphical representation if possible (e.g. CellDesigner display)
- link to SBML file or matlab.
Model variables and parameters for the growth of the predator
(list all the variables and parameters of the model in a table, specifying if their values are known, unknown, to be measured.)
|AHL||homoserine lactone acting as the prey-molecule||0||depends how good is the control of the prey positive feedback||links|
|luxR||molecule acting as the sensing module for the predator||0||to be measured as we might have to deal with some leakage of the promoter||links|
|aiiA||molecule acting as the killing module of the prey for the predator||0||to be measured as we might have to deal with some leakage of the promoter||links|
|c||maximum synthesis rate of the pLux promoter||to be characterized||to be measured||links|
|c0||dissociation constant according to Hill eq||to be characterized||to be measured||links|
|gd||growth dilution||to be characterized||to be measured||links|
- Parameters c & c0 for characterization have to be extracted.
- gd[luxR] and gd[aiiA] can be controlled by the chemostat.