org.simBio.bio.matsuoka_et_al_2003.molecule.buffer.Ca
Class TroponinNL

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_2003.molecule.buffer.Buffer
                      org.simBio.bio.matsuoka_et_al_2003.molecule.buffer.Ca.TroponinNL

All Implemented Interfaces:

Node

Direct Known Subclasses:

TroponinNL_RK

public class TroponinNL
extends Buffer

Troponin state transition of Cardiac Muscle Model by Negroni and Lascano.

Version:

$Log: TroponinNL.java,v $ Revision 1.1 2005/11/01 06:32:40 mikaelwing First version of simBio hosted on sourceforge, version 0.3 Revision 1.1 2005/09/12 04:57:32 sarai rearrenge folder structure as a Maven style Revision 1.4 2005/08/29 02:02:03 sarai alfa5 is set 0.009 as in the Matsuoka et al, 2004
Modified on 2004/7/24 to calculate ATP consumption.

Author:

Nobuaki Sarai, modified by Kim

See Also:

Negroni JA and Lascano EC, 1996.
XML example explanation (WORD doc)

Field Summary

protected double	alfa1
protected double	alfa2
protected double	alfa3
protected double	alfa4
protected double	alfa5 This value is 9000 in Negroni and Lascano, 1996.
Node	ATP
Node	ATPconsumingRate
Node	ATPconsumption
protected double	beta1
protected double	beta2
protected double	beta3
protected double	bias
Node	Ca
protected double	Cai
CrossBridgeNL	crossBridge
protected double	dATP
protected double	pCa
protected double	pCaCB
protected double	pCB
protected double	Q1
protected double	Q2
protected double	Q3
protected double	Q4
protected double	Q5
double	t0
Node	TCa
Node	TCaCB
Node	TCB

Fields inherited from class org.simBio.bio.matsuoka_et_al_2003.molecule.buffer.Buffer

free, total

Fields inherited from class org.simBio.core.Parameter

value

Constructor Summary

TroponinNL()

Method Summary

protected void	calculate(double t) write equations here, and calculate dy over dt.
double	getCBbound()
protected void	prepare() 親が自分と同じ名前のpublic doubleを持っていれば、自分の値を設定する。

Methods inherited from class org.simBio.core.Composite

accept, getLink, getNode, getNodesIterator, getNodesSize

Methods inherited from class org.simBio.core.Parameter

addValue, getValue, getValueString, 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

dATP

protected double dATP

bias

protected double bias

alfa1

protected double alfa1

beta1

protected double beta1

alfa2

protected double alfa2

beta2

protected double beta2

alfa3

protected double alfa3

beta3

protected double beta3

alfa4

protected double alfa4

alfa5

protected double alfa5

This value is 9000 in Negroni and Lascano, 1996.

Cai

protected double Cai

pCa

protected double pCa

pCaCB

protected double pCaCB

pCB

protected double pCB

Q1

protected double Q1

Q2

protected double Q2

Q3

protected double Q3

Q4

protected double Q4

Q5

protected double Q5

crossBridge

public CrossBridgeNL crossBridge

ATP

public Node ATP

Ca

public Node Ca

TCa

public Node TCa

TCaCB

public Node TCaCB

TCB

public Node TCB

ATPconsumption

public Node ATPconsumption

ATPconsumingRate

public Node ATPconsumingRate

t0

public double t0

Constructor Detail

TroponinNL

public TroponinNL()

Method Detail

getCBbound

public double getCBbound()

Returns:

[TCaCB] + [TCB]

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。

Specified by:

calculate in class Reactor

Parameters:

t - elapsed time (ms)

prepare

protected void prepare()

Description copied from class: Parameter

親が自分と同じ名前のpublic doubleを持っていれば、自分の値を設定する。

Overrides:

prepare in class Parameter

See Also:

Component.prepare()