Registry of Standard Biological Models/Basic Component Models/RBS mRNA
From OpenWetWare
ID: Ribosome Binding Site (RBS)
- Description: RBS_mRNA
- Hypothesis:
- Continuous and constant transcription and translation rate
- Unlimited resource for transcription and translation
- Inputs:
- PoPs IN
- Outputs:
- synthesis-rate
- Internal parameters:
- translation-rate
- mRNA
- mRNA degradation rate
CellML structure (CellML 1.1 spec)
- Component: RBS_mRNA
- Units:
- TBD
- Variables:
- time (public interface = in )
- translationRate (public interface = none / init value = XXX)
- mRNADegradationRate (public interface = none / init value = XXX)
- mRNA (public interface = none / init value = XXX)
- synthesisRate (public interface = out )
- MathML
- <amsmath>\frac{d[mRNA]}{d time} = PoPsIN - [mRNA]*mRNADegradationRate </amsmath>
- <amsmath> synthesisRate = [mRNA]*translationRate </amsmath>
Comments
- trying to unified the interface between the quasi steady state approximation on the mRNA level and its fully dynamic simulation
- I try to encapsulate the mRNA dynamic inside the RBS component so it can deliver a 'synthesis-rate' flow to the downstream protein element. This way it would be the same interface a the Promoter_RBS_Coupled element.
- Don't know if it is possible to define a system of ODEs in the MathML description part of the component ???