Registry of Standard Biological Models/Basic Component Models/RBS mRNA

ID: Ribosome Binding Site (RBS)

• Description: RBS promoting translation rate
• Hypothesis:
  • Continuous and constant translation rate
  • Unlimited resource for 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
• Don't know if it is possible to define a system of ODEs in the MathML description part of the component ???