Physiology

Reaction Diagram

reactionDiagram

Cross-References

Annotations

Reactions

Reactions
Name
Structure
Kinetics
R R_degradation c0 MassAction
R R_synthesis c0 GeneralKinetics

Reaction Name: R_degradation

Universal ID's

Text Annotations

Reaction Name: R_synthesis

Universal ID's

Text Annotations

Reaction Name: R_degradation

Expressions

reaction rate

(Kf * R) [uM.s-1]

forward rate constant

kd [s-1]

reverse rate constant

0.0 [uM.s-1]

user defined

5.0 [s-1]

Reaction Name: R_synthesis

Expressions

reaction rate

(k * S) [uM.s-1]

user defined

1.0 [s-1]

Structures

Name
Type
Electrical
c0 Compartment (+)   (-)

Structure Name: c0

Universal ID's

Text Annotations

Species

Name
Structure
R c0
S c0

Species Name: R

Universal ID's

Text Annotations

Species Name: S

Universal ID's

Text Annotations

Molecules

Name
Description
S S ()
R R ()

Molucule Name: S

Universal ID's

Text Annotations

Molucule Name: R

Universal ID's

Text Annotations

Observables

Name
Domain
Molecular Type
Sequence Type
O0_S_tot Molecules S Multimolecular
O0_R_tot Molecules R Multimolecular

Observables Name: O0_S_tot

Universal ID's

Text Annotations

Observables Name: O0_R_tot

Universal ID's

Text Annotations

Applications

Name
Properties Math Type
Linear Specs - Species
Specs - Reaction
Simulations

Application Name: Linear

Text Annotations

Annotations will come here

Universal ID's

RFID | pubmed

Specifications (Species) - Linear go to Simulations

Species
Initial Condition
Diffusion Constant
R 0.0 0.0
S t 0.0

Specifications (Reaction) - Linear go to Simulations

Name
Enabled?
R_degradation included
R_synthesis included

Simulations - Linear go to Specifications

Name
End Time
Output Options
Simulation0 3.0 every

Simulation Name: Simulation0

Universal ID's

Text Annotations

Global Parameters

Name
Expression

Downloads

Format
File
BNGL
Metlab
SBML
Formatted XML
SEDML
Deterministic XML