org.simBio.bio.kuzumoto_et_al_2007.function
Class ConcentrationAMP

java.lang.Object
  org.simBio.core.Component
      org.simBio.core.Parameter
          org.simBio.core.Composite
              org.simBio.core.Reactor
                  org.simBio.bio.matsuoka_et_al_2004.function.MassConservation2
                      org.simBio.bio.kuzumoto_et_al_2007.function.ConcentrationAMP

All Implemented Interfaces:

Node

public class ConcentrationAMP
extends MassConservation2

calculation of AMP concentration (conformed to mass conservation law).

  [Adenosine]total_cell = [ATP]cell + [ADP]cell + [AMP] + [cAMP]
  [AMP] = [Adenosine]total_cell - [ATP]cell - [ADP]cell - [cAMP]
 

Version:

$Id: ConcentrationAMP.java,v 1.1 2007/12/15 07:21:54 nsarai Exp $

Author:

SAITO Ryuta

See Also:

Kuzumoto et al, 2007., Matsuoka et al. 2004., Korzeniewski & Zoladz 2001., XML example, explanation (Japanese, WORD doc)

Field Summary

Node	ADPtotal
Node	ATPtotal
Node	cAMP
double	TotalAdenosine total adenosine concentration

Fields inherited from class org.simBio.bio.matsuoka_et_al_2004.function.MassConservation2

other1, other2, total

Fields inherited from class org.simBio.core.Parameter

value

Constructor Summary

ConcentrationAMP()

Method Summary

protected void

calculate(double t) write equations here, and calculate dy over dt.

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

ATPtotal

public Node ATPtotal

ADPtotal

public Node ADPtotal

cAMP

public Node cAMP

TotalAdenosine

public double TotalAdenosine

total adenosine concentration

Constructor Detail

ConcentrationAMP

public ConcentrationAMP()

Method Detail

calculate

protected void calculate(double t)

Description copied from class: Reactor

write equations here, and calculate dy over dt.
計算中に呼び出される。 計算式を記載する。dy/dtをここで計算する。

Overrides:

calculate in class MassConservation2

Parameters:

t - elapsed time (ms)