org.simBio.bio.matsuoka_et_al_2003.current.channel
Class IRyR

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.current.MembraneTransporter
                      org.simBio.bio.matsuoka_et_al_2003.current.channel.Channel
                          org.simBio.bio.matsuoka_et_al_2003.current.channel.IRyR

All Implemented Interfaces:

Node

Direct Known Subclasses:

IRyR

public class IRyR
extends Channel

Calcium releasing channel on SR.

Since:

rc20

Version:

$Revision: 1.1 $

Author:

Nobuaki Sarai, modified by Kim, modified by Hiroyuki Nakai

See Also:

Equation (1) to (7) of Table 8 in Matsuoka et al, 2003
XML example
explanation (Japanese, WORD doc)

Field Summary

Node	CaDiadic local Ca2+ concentration near the mouth of RyR channel
Node	Cai intracellular calcium concentration (mM)
Node	Cao extracellular calcium concentration (mM)
Node	close close state probability
double	diadicFactor Ca diadicFactor
Node	open open state probability
double	pClose close state probability
double	permeabilityCa membrane permeability
double	pOpen open state probability
Node	sumCa integration of IRyR

Fields inherited from class org.simBio.bio.matsuoka_et_al_2003.current.channel.Channel

Vm

Fields inherited from class org.simBio.bio.matsuoka_et_al_2003.current.MembraneTransporter

cCa, CCa, cK, CK, cNa, CNa, current, currentCa, currentK, currentNa, total

Fields inherited from class org.simBio.core.Parameter

value

Constructor Summary

IRyR()

Method Summary

protected void	calculate(double t) add current to Compartment.
protected void	prepare() construct null current

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

pOpen

public double pOpen

open state probability

pClose

public double pClose

close state probability

open

public Node open

open state probability

close

public Node close

close state probability

Cai

public Node Cai

intracellular calcium concentration (mM)

Cao

public Node Cao

extracellular calcium concentration (mM)

CaDiadic

public Node CaDiadic

local Ca2+ concentration near the mouth of RyR channel

sumCa

public Node sumCa

integration of IRyR

diadicFactor

public double diadicFactor

Ca diadicFactor

permeabilityCa

public double permeabilityCa

membrane permeability

Constructor Detail

IRyR

public IRyR()

Method Detail

calculate

protected void calculate(double t)

Description copied from class: MembraneTransporter

add current to Compartment.

Overrides:

calculate in class MembraneTransporter

Parameters:

t - time

prepare

protected void prepare()

Description copied from class: MembraneTransporter

construct null current

Overrides:

prepare in class MembraneTransporter

See Also:

Component.prepare()