Registry of Standard Biological Models/Basic Component Models/Activated Promoter: Difference between revisions

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*'''Component''': ActivatedPromoter
*'''Component''': ActivatedPromoter
*'''Units''':  
*'''Units''':  
**TBD
**Imported from Environment component
*'''Variables''':
*'''Variables''':
**nbGeneCopies (public interface = in / init value = 1.0)
**nbGeneCopies (public interface = in / init value = 1.0)
**maxTranscriptionRate (public interface = none / init value = XXX)
**maxTranscriptionRate (public interface = none / init value = XXX)
**sensitivity (public interface = none / init value = XXX)
**K (dissociation-constant) (public interface = none / init value = XXX)
**n (Hill-coefficient) (public interface = none / init value = XXX)
**activator (public interface = in )
**activator (public interface = in )
**PoPsOUT (public interface = out / init value = 0.)
**PoPsOUT (public interface = out / init value = 0.)
*'''MathML'''
*'''MathML'''
**<amsmath>PoPsOUT = \frac{maxTranscriptionRate*nbGenesCopies*activator}{sensitivity + activator}</amsmath>
**<amsmath>PoPsOUT = \frac{nbGenesCopies*maxTranscriptionRate*[activator]^{n}}{K^{n} + [activator]^{n}}</amsmath>
 


==Comments==
==Comments==

Revision as of 15:29, 9 September 2006

Activated Promoter Architecture

  • Description: Promoter activated by an activator molecule
  • Hypothesis:
    • Binding of the activator on the promoter (Hill-function-type equation)
    • Continuous transcription rate with an existing maximum rate of transcription
    • Transcription rate depends on number of gene copies
  • Inputs:
    • activator
    • nb-gene-copies
  • Outputs:
    • PoPs_OUT
  • Internal parameters:
    • max-transcription-rate-per-gene
    • dissociation-constant
    • Hill-coefficient
Activated Promoter Brick Architecture

CellML structure (CellML 1.1 spec)

  • Component: ActivatedPromoter
  • Units:
    • Imported from Environment component
  • Variables:
    • nbGeneCopies (public interface = in / init value = 1.0)
    • maxTranscriptionRate (public interface = none / init value = XXX)
    • K (dissociation-constant) (public interface = none / init value = XXX)
    • n (Hill-coefficient) (public interface = none / init value = XXX)
    • activator (public interface = in )
    • PoPsOUT (public interface = out / init value = 0.)
  • MathML
    • <amsmath>PoPsOUT = \frac{nbGenesCopies*maxTranscriptionRate*[activator]^{n}}{K^{n} + [activator]^{n}}</amsmath>

Comments

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