org.simBio.bio.oka_et_al_2006.function.kinetics
Class TwoStateModel

java.lang.Object
  org.simBio.core.Component
      org.simBio.core.Parameter
          org.simBio.core.Composite
              org.simBio.core.Reactor
                  org.simBio.bio.oka_et_al_2006.function.kinetics.TwoStateModel

All Implemented Interfaces:

Node

public class TwoStateModel
extends Reactor

Two-state model. Open + nX <->Closed

Version:

$Revision: 1.1 $

Author:

Chiaki Oka

See Also:

TwoStateModel.ja.doc (Japanese, WORD doc)

Field Summary

double	alpha forward rate constant
double	beta backward rate constant
Node	close closed state probability
Node	ligand ligand concentration
double	nHill Hill coefficient
Node	open open state probability

Fields inherited from class org.simBio.core.Parameter

value

Constructor Summary

TwoStateModel()

Method Summary

protected void

calculate(double t) Calculate the open probability

Methods inherited from class org.simBio.core.Composite

accept, getLink, getNode, getNodesIterator, getNodesSize

Methods inherited from class org.simBio.core.Parameter

addValue, getValue, getValueString, prepare, setInitializer, setValue, setValueString, setValueToField

Methods inherited from class org.simBio.core.Component

addDydt, end, getIndent, getIndentedShortName, getName, getName, getParent, getRoot, getShortName, getUnits, isNamed, isPrefixed, logIndented, quit, setLinks

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface org.simBio.core.Node

addDydt, addValue, getValue, setValue

Field Detail

open

public Node open

open state probability

close

public Node close

closed state probability

ligand

public Node ligand

ligand concentration

alpha

public double alpha

forward rate constant

beta

public double beta

backward rate constant

nHill

public double nHill

Hill coefficient

Constructor Detail

TwoStateModel

public TwoStateModel()

Method Detail

calculate

protected void calculate(double t)

Calculate the open probability

Specified by:

calculate in class Reactor

Parameters:

t - elapsed time (ms)

See Also:

Reactor.calculate(double)