<?xml version='1.0' encoding='utf-8'?>
<!-- FILE : sneyd_model_2002.xml
CREATED : 22nd May 2007
LAST MODIFIED : 22nd May 2007
AUTHOR : Catherine Lloyd
The Bioengineering Institute
The University of Auckland
MODEL STATUS : This model conforms to the CellML 1.1 Specification.
DESCRIPTION : This file contains a CellML description of James Sneyd and Jean-Francois Dufuor's 2002 dynamic model of the type-2 inositol triphosphate receptor.
CHANGES:
--><model xmlns="http://www.cellml.org/cellml/1.0#" xmlns:cmeta="http://www.cellml.org/metadata/1.0#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqs="http://www.cellml.org/bqs/1.0#" xmlns:cellml="http://www.cellml.org/cellml/1.0#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" cmeta:id="sneyd_model_2002_version02" name="sneyd_dufour_2002_version01">
<documentation xmlns="http://cellml.org/tmp-documentation">
<article>
<articleinfo>
<title>A Dynamic Model Of The Type-2 Inositol Triphosphate Receptor</title>
<author>
<firstname>Catherine</firstname>
<surname>Lloyd</surname>
<affiliation>
<shortaffil>Bioengineering Institute, University of Auckland</shortaffil>
</affiliation>
</author>
</articleinfo>
<sect1 id="sec_structure">
<title>Model Structure</title>
<para>
Oscillations and waves in the concentration of free intracellular calcium ions (Ca<superscript>2+</superscript>) are seen in many cell types and are known to be an important intra- and intercellular signalling system. It is therefore of interest to determine the mechanisms underlying such complex dynamic behaviour. One of the most important of these mechanisms is the inositol triphosphate receptor (IPR), which also functions as a Ca<superscript>2+</superscript> channel. Models of the IPR play a central role in models of Ca<superscript>2+</superscript> oscillations and waves. However, many models of this receptor do not agree with recent experimental data on the dynamic responses of the receptor.
</para>
<para>
In their 2002 dynamic model of the type-2 IPR, which is based on dynamic and steady-state experimental data, James Sneyd and Jean-Francois Dufour demonstrate that Ca<superscript>2+</superscript> binds to the receptor using saturating, not mass-action kinetics. Their model is similar to the Michaelis-Menten model of an enzyme-catalysed reaction (see the figure below). The model assumes that the binding of IP<subscript>3</subscript> (denoted by p in the diagram below) and Ca<superscript>2+</superscript> is sequential , not independent, so Ca<superscript>2+</superscript> can bind to the activating site only after IP<subscript>3</subscript> has bound.
</para>
<para>
The complete original paper reference is cited below:
</para>
<para>
<ulink url="http://www.pnas.org/cgi/content/abstract/99/4/2398">A dynamic model of the type-2 inositol triphosphate receptor</ulink>, James Sneyd and Jean-Francois Dufour, 2002, <ulink url="http://www.pnas.org/">
<emphasis>Proceedings of the National Academy of Sciences </emphasis>
</ulink>, 99, 2398-2403. (A <ulink url="http://www.pnas.org/cgi/reprint/99/4/2398.pdf">PDF</ulink> of the article is available to subscribers of the PNAS website.) <ulink url="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=11842185&dopt=Abstract">PubMed ID: 11842185</ulink>
</para>
<informalfigure float="0" id="fig_simplified_diagram">
<mediaobject>
<imageobject>
<objectinfo>
<title>A simplified diagram of the IPR model</title>
</objectinfo>
<imagedata fileref="sneyd_2002.png"/>
</imageobject>
</mediaobject>
<caption>A simplified diagram of the IPR model, where R represents the free receptor, O is the open state of the channel, A is the activated state of the channel and I<subscript>1</subscript>, I<subscript>2</subscript>, and S are three inactive states.</caption>
</informalfigure>
</sect1>
</article>
</documentation>
<units name="micromolar">
<unit units="mole" prefix="micro"/>
<unit units="litre" exponent="-1"/>
</units>
<units name="flux">
<unit units="micromolar"/>
<unit units="second" exponent="-1"/>
</units>
<units name="first_order_rate_constant">
<unit units="second" exponent="-1"/>
</units>
<units name="second_order_rate_constant">
<unit units="micromolar" exponent="-1"/>
<unit units="second" exponent="-1"/>
</units>
<component name="environment">
<variable units="second" public_interface="out" name="time"/>
</component>
<component cmeta:id="R" name="R">
<variable units="dimensionless" public_interface="out" name="R"/>
<variable units="first_order_rate_constant" public_interface="in" name="phi_1"/>
<variable units="first_order_rate_constant" public_interface="in" name="phi_2"/>
<variable units="first_order_rate_constant" public_interface="in" name="phi_2b"/>
<variable units="first_order_rate_constant" public_interface="in" name="k_1b"/>
<variable units="first_order_rate_constant" public_interface="in" name="l_2b"/>
<variable units="dimensionless" public_interface="in" name="I_1"/>
<variable units="dimensionless" public_interface="in" name="O"/>
<variable units="micromolar" public_interface="in" name="p"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci> R </ci>
</apply>
<apply>
<minus/>
<apply>
<plus/>
<apply>
<times/>
<ci> phi_2b </ci>
<ci> O </ci>
</apply>
<apply>
<times/>
<apply>
<plus/>
<ci> k_1b </ci>
<ci> l_2b </ci>
</apply>
<ci> I_1 </ci>
</apply>
</apply>
<apply>
<plus/>
<apply>
<times/>
<ci> phi_2 </ci>
<ci> p </ci>
<ci> R </ci>
</apply>
<apply>
<times/>
<ci> phi_1 </ci>
<ci> R </ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component cmeta:id="O" name="O">
<variable units="dimensionless" public_interface="out" name="O"/>
<variable units="second_order_rate_constant" public_interface="in" name="phi_3"/>
<variable units="first_order_rate_constant" public_interface="in" name="phi_4"/>
<variable units="first_order_rate_constant" public_interface="in" name="phi_4b"/>
<variable units="first_order_rate_constant" public_interface="in" name="phi_2"/>
<variable units="first_order_rate_constant" public_interface="in" name="phi_2b"/>
<variable units="first_order_rate_constant" public_interface="in" name="k_3b"/>
<variable units="dimensionless" public_interface="in" name="R"/>
<variable units="dimensionless" public_interface="in" name="A"/>
<variable units="dimensionless" public_interface="in" name="S"/>
<variable units="micromolar" public_interface="in" name="p"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci> O </ci>
</apply>
<apply>
<minus/>
<apply>
<plus/>
<apply>
<times/>
<ci> phi_2 </ci>
<ci> p </ci>
<ci> R </ci>
</apply>
<apply>
<times/>
<ci> phi_4b </ci>
<ci> A </ci>
</apply>
<apply>
<times/>
<ci> k_3b </ci>
<ci> S </ci>
</apply>
</apply>
<apply>
<times/>
<apply>
<plus/>
<ci> phi_2b </ci>
<ci> phi_4 </ci>
<ci> phi_3 </ci>
</apply>
<ci> O </ci>
</apply>
</apply>
</apply>
</math>
</component>
<component cmeta:id="S" name="S">
<variable units="dimensionless" public_interface="out" name="S"/>
<variable units="dimensionless" public_interface="in" name="I_1"/>
<variable units="dimensionless" public_interface="in" name="I_2"/>
<variable units="dimensionless" public_interface="in" name="O"/>
<variable units="dimensionless" public_interface="in" name="R"/>
<variable units="dimensionless" public_interface="in" name="A"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci> S </ci>
<apply>
<minus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<plus/>
<ci> R </ci>
<ci> O </ci>
<ci> A </ci>
<ci> I_1 </ci>
<ci> I_2 </ci>
</apply>
</apply>
</apply>
</math>
</component>
<component cmeta:id="I_1" name="I_1">
<variable units="dimensionless" public_interface="out" name="I_1"/>
<variable units="first_order_rate_constant" public_interface="in" name="phi_1"/>
<variable units="first_order_rate_constant" public_interface="in" name="k_1b"/>
<variable units="first_order_rate_constant" public_interface="in" name="l_2b"/>
<variable units="dimensionless" public_interface="in" name="R"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci> I_1 </ci>
</apply>
<apply>
<minus/>
<apply>
<times/>
<ci> phi_1 </ci>
<ci> R </ci>
</apply>
<apply>
<times/>
<apply>
<plus/>
<ci> k_1b </ci>
<ci> l_2b </ci>
</apply>
<ci> I_1 </ci>
</apply>
</apply>
</apply>
</math>
</component>
<component cmeta:id="I_2" name="I_2">
<variable units="dimensionless" public_interface="out" name="I_2"/>
<variable units="first_order_rate_constant" public_interface="in" name="phi_5"/>
<variable units="first_order_rate_constant" public_interface="in" name="k_1b"/>
<variable units="first_order_rate_constant" public_interface="in" name="l_2b"/>
<variable units="dimensionless" public_interface="in" name="A"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci> I_2 </ci>
</apply>
<apply>
<minus/>
<apply>
<times/>
<ci> phi_5 </ci>
<ci> A </ci>
</apply>
<apply>
<times/>
<apply>
<plus/>
<ci> k_1b </ci>
<ci> l_2b </ci>
</apply>
<ci> I_2 </ci>
</apply>
</apply>
</apply>
</math>
</component>
<component cmeta:id="A" name="A">
<variable units="dimensionless" public_interface="out" name="A"/>
<variable units="first_order_rate_constant" public_interface="in" name="phi_5"/>
<variable units="first_order_rate_constant" public_interface="in" name="phi_4"/>
<variable units="first_order_rate_constant" public_interface="in" name="phi_4b"/>
<variable units="first_order_rate_constant" public_interface="in" name="k_1b"/>
<variable units="first_order_rate_constant" public_interface="in" name="l_2b"/>
<variable units="dimensionless" public_interface="in" name="I_2"/>
<variable units="dimensionless" public_interface="in" name="O"/>
<variable units="second" public_interface="in" name="time"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci> A </ci>
</apply>
<apply>
<minus/>
<apply>
<plus/>
<apply>
<times/>
<ci> phi_4 </ci>
<ci> O </ci>
</apply>
<apply>
<times/>
<apply>
<plus/>
<ci> k_1b </ci>
<ci> l_2b </ci>
</apply>
<ci> I_2 </ci>
</apply>
</apply>
<apply>
<plus/>
<apply>
<times/>
<ci> phi_4b </ci>
<ci> A </ci>
</apply>
<apply>
<times/>
<ci> phi_5 </ci>
<ci> A </ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="reaction_rate_constants">
<variable units="first_order_rate_constant" public_interface="out" name="phi_1"/>
<variable units="first_order_rate_constant" public_interface="out" name="phi_2"/>
<variable units="first_order_rate_constant" public_interface="out" name="phi_2b"/>
<variable units="second_order_rate_constant" public_interface="out" name="phi_3"/>
<variable units="first_order_rate_constant" public_interface="out" name="phi_4"/>
<variable units="first_order_rate_constant" public_interface="out" name="phi_4b"/>
<variable units="first_order_rate_constant" public_interface="out" name="phi_5"/>
<variable units="micromolar" public_interface="out" name="p" initial_value="10.0"/>
<variable units="second_order_rate_constant" name="k_1a" initial_value="0.64"/>
<variable units="first_order_rate_constant" public_interface="out" name="k_1b" initial_value="0.04"/>
<variable units="second_order_rate_constant" name="k_2a" initial_value="37.4"/>
<variable units="first_order_rate_constant" name="k_2b" initial_value="1.4"/>
<variable units="second_order_rate_constant" name="k_3a" initial_value="0.11"/>
<variable units="first_order_rate_constant" public_interface="out" name="k_3b" initial_value="29.8"/>
<variable units="second_order_rate_constant" name="k_4a" initial_value="4.0"/>
<variable units="first_order_rate_constant" name="k_4b" initial_value="0.54"/>
<variable units="first_order_rate_constant" name="l_2a" initial_value="1.7"/>
<variable units="first_order_rate_constant" public_interface="out" name="l_2b" initial_value="0.8"/>
<variable units="second_order_rate_constant" name="l_4a" initial_value="1.7"/>
<variable units="second_order_rate_constant" name="l_4b" initial_value="2.5"/>
<variable units="first_order_rate_constant" name="l_6a" initial_value="4707.0"/>
<variable units="first_order_rate_constant" name="l_6b" initial_value="11.4"/>
<variable units="micromolar" name="L_1" initial_value="0.12"/>
<variable units="micromolar" name="L_3" initial_value="0.025"/>
<variable units="micromolar" name="L_5" initial_value="54.7"/>
<variable units="micromolar" name="c" initial_value="10.0"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="phi_1_calculation">
<eq/>
<ci> phi_1 </ci>
<apply>
<divide/>
<apply>
<times/>
<apply>
<plus/>
<apply>
<times/>
<ci> k_1a </ci>
<ci> L_1 </ci>
</apply>
<ci> l_2a </ci>
</apply>
<ci> c </ci>
</apply>
<apply>
<plus/>
<ci> L_1 </ci>
<apply>
<times/>
<ci> c </ci>
<apply>
<plus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<divide/>
<ci> L_1 </ci>
<ci> L_3 </ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply id="phi_2_calculation">
<eq/>
<ci> phi_2 </ci>
<apply>
<divide/>
<apply>
<plus/>
<apply>
<times/>
<ci> k_2a </ci>
<ci> L_3 </ci>
</apply>
<apply>
<times/>
<ci> l_4a </ci>
<ci> c </ci>
</apply>
</apply>
<apply>
<plus/>
<ci> L_3 </ci>
<apply>
<times/>
<ci> c </ci>
<apply>
<plus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<divide/>
<ci> L_3 </ci>
<ci> L_1 </ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply id="phi_2b_calculation">
<eq/>
<ci> phi_2b </ci>
<apply>
<divide/>
<apply>
<plus/>
<ci> k_2b </ci>
<apply>
<times/>
<ci> l_4b </ci>
<ci> c </ci>
</apply>
</apply>
<apply>
<plus/>
<cn cellml:units="dimensionless"> 1.0 </cn>
<apply>
<divide/>
<ci> c </ci>
<ci> L_5 </ci>
</apply>
</apply>
</apply>
</apply>
<apply id="phi_3_calculation">
<eq/>
<ci> phi_3 </ci>
<apply>
<divide/>
<apply>
<times/>
<ci> k_3a </ci>
<ci> L_5 </ci>
</apply>
<apply>
<plus/>
<ci> c </ci>
<ci> L_5 </ci>
</apply>
</apply>
</apply>
<apply id="phi_4_calculation">
<eq/>
<ci> phi_4 </ci>
<apply>
<divide/>
<apply>
<times/>
<apply>
<plus/>
<apply>
<times/>
<ci> k_4a </ci>
<ci> L_5 </ci>
</apply>
<ci> l_6a </ci>
</apply>
<ci> c </ci>
</apply>
<apply>
<plus/>
<ci> c </ci>
<ci> L_5 </ci>
</apply>
</apply>
</apply>
<apply id="phi_4b_calculation">
<eq/>
<ci> phi_4b </ci>
<apply>
<divide/>
<apply>
<times/>
<apply>
<plus/>
<apply>
<times/>
<ci> k_1a </ci>
<ci> L_1 </ci>
</apply>
<ci> l_2a </ci>
</apply>
<ci> c </ci>
</apply>
<apply>
<plus/>
<ci> c </ci>
<ci> L_1 </ci>
</apply>
</apply>
</apply>
<apply id="phi_5_calculation">
<eq/>
<ci> phi_5 </ci>
<apply>
<divide/>
<apply>
<times/>
<ci> L_1 </ci>
<apply>
<plus/>
<ci> k_4b </ci>
<ci> l_6b </ci>
</apply>
<ci> c </ci>
</apply>
<apply>
<plus/>
<ci> c </ci>
<ci> L_1 </ci>
</apply>
</apply>
</apply>
</math>
</component>
<connection>
<map_components component_2="environment" component_1="R"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="O"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="I_1"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="I_2"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="environment" component_1="A"/>
<map_variables variable_2="time" variable_1="time"/>
</connection>
<connection>
<map_components component_2="reaction_rate_constants" component_1="R"/>
<map_variables variable_2="phi_1" variable_1="phi_1"/>
<map_variables variable_2="phi_2" variable_1="phi_2"/>
<map_variables variable_2="phi_2b" variable_1="phi_2b"/>
<map_variables variable_2="k_1b" variable_1="k_1b"/>
<map_variables variable_2="l_2b" variable_1="l_2b"/>
<map_variables variable_2="p" variable_1="p"/>
</connection>
<connection>
<map_components component_2="reaction_rate_constants" component_1="O"/>
<map_variables variable_2="phi_3" variable_1="phi_3"/>
<map_variables variable_2="phi_2" variable_1="phi_2"/>
<map_variables variable_2="phi_2b" variable_1="phi_2b"/>
<map_variables variable_2="phi_4" variable_1="phi_4"/>
<map_variables variable_2="phi_4b" variable_1="phi_4b"/>
<map_variables variable_2="k_3b" variable_1="k_3b"/>
<map_variables variable_2="p" variable_1="p"/>
</connection>
<connection>
<map_components component_2="reaction_rate_constants" component_1="I_1"/>
<map_variables variable_2="phi_1" variable_1="phi_1"/>
<map_variables variable_2="k_1b" variable_1="k_1b"/>
<map_variables variable_2="l_2b" variable_1="l_2b"/>
</connection>
<connection>
<map_components component_2="reaction_rate_constants" component_1="I_2"/>
<map_variables variable_2="phi_5" variable_1="phi_5"/>
<map_variables variable_2="k_1b" variable_1="k_1b"/>
<map_variables variable_2="l_2b" variable_1="l_2b"/>
</connection>
<connection>
<map_components component_2="reaction_rate_constants" component_1="A"/>
<map_variables variable_2="phi_5" variable_1="phi_5"/>
<map_variables variable_2="phi_4" variable_1="phi_4"/>
<map_variables variable_2="phi_4b" variable_1="phi_4b"/>
<map_variables variable_2="k_1b" variable_1="k_1b"/>
<map_variables variable_2="l_2b" variable_1="l_2b"/>
</connection>
<connection>
<map_components component_2="I_1" component_1="R"/>
<map_variables variable_2="R" variable_1="R"/>
<map_variables variable_2="I_1" variable_1="I_1"/>
</connection>
<connection>
<map_components component_2="O" component_1="R"/>
<map_variables variable_2="R" variable_1="R"/>
<map_variables variable_2="O" variable_1="O"/>
</connection>
<connection>
<map_components component_2="O" component_1="S"/>
<map_variables variable_2="S" variable_1="S"/>
<map_variables variable_2="O" variable_1="O"/>
</connection>
<connection>
<map_components component_2="O" component_1="A"/>
<map_variables variable_2="A" variable_1="A"/>
<map_variables variable_2="O" variable_1="O"/>
</connection>
<connection>
<map_components component_2="I_2" component_1="A"/>
<map_variables variable_2="A" variable_1="A"/>
<map_variables variable_2="I_2" variable_1="I_2"/>
</connection>
<connection>
<map_components component_2="R" component_1="S"/>
<map_variables variable_2="R" variable_1="R"/>
</connection>
<connection>
<map_components component_2="A" component_1="S"/>
<map_variables variable_2="A" variable_1="A"/>
</connection>
<connection>
<map_components component_2="I_1" component_1="S"/>
<map_variables variable_2="I_1" variable_1="I_1"/>
</connection>
<connection>
<map_components component_2="I_2" component_1="S"/>
<map_variables variable_2="I_2" variable_1="I_2"/>
</connection>
<rdf:RDF>
<rdf:Bag rdf:about="rdf:#b865b3df-b00a-4e44-a8ce-886187f7eea9">
<rdf:li>calcium dynamics</rdf:li>
<rdf:li>ip3 receptor</rdf:li>
<rdf:li>IP3 receptor</rdf:li>
</rdf:Bag>
<rdf:Seq rdf:about="rdf:#6111cd36-0957-42ed-a020-0a413b58e32e">
<rdf:li rdf:resource="rdf:#292f31fd-3a27-479c-994d-5e112c60017a"/>
<rdf:li rdf:resource="rdf:#600a325c-8a8b-43ac-b8d7-625a5b7d799b"/>
</rdf:Seq>
<rdf:Description rdf:about="rdf:#67d268c3-19f0-420c-9721-31f6f32f6324">
<vCard:Given>Catherine</vCard:Given>
<vCard:Family>Lloyd</vCard:Family>
<vCard:Other>May</vCard:Other>
</rdf:Description>
<rdf:Description rdf:about="/A">
<dcterms:alternative>Active state</dcterms:alternative>
<dc:title>A</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#cef5a763-b1c9-4c6b-8bc9-9daaa5b9e08a">
<dc:title>PNAS</dc:title>
</rdf:Description>
<rdf:Description rdf:about="">
<dc:publisher>The University of Auckland, Bioengineering Institute</dc:publisher>
<cmeta:comment rdf:resource="rdf:#0585328f-cbc9-4041-96cb-f7a0033edd46"/>
<dcterms:created rdf:resource="rdf:#2b47520f-a27e-4206-8b9d-38f2685816a1"/>
<dc:creator rdf:resource="rdf:#d222b477-b54b-48d5-842e-ae09a9a11530"/>
<cmeta:modification rdf:resource="rdf:#29bca02a-d2e6-42a9-a72d-ee3bd1c02895"/>
<cmeta:modification rdf:resource="rdf:#34ba7e21-a71a-42c1-b9f8-b5f4cdf10238"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#2b47520f-a27e-4206-8b9d-38f2685816a1">
<dcterms:W3CDTF>2007-05-22T00:00:00+00:00</dcterms:W3CDTF>
</rdf:Description>
<rdf:Description rdf:about="rdf:#9249daff-b2ed-4a5a-aa13-f3384eb279ff">
<dc:subject rdf:resource="rdf:#8de13f80-a3fe-45a0-820f-328debc8faa1"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#078e99d0-2315-42a3-bf2b-b1698d1bb949">
<vCard:N rdf:resource="rdf:#31ab70d4-dd42-4248-badc-de88f84942c2"/>
</rdf:Description>
<rdf:Description rdf:about="/O">
<dcterms:alternative>Open state</dcterms:alternative>
<dc:title>O</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#f2f72219-83b7-4a26-bcc9-29a1701dd667">
<dcterms:W3CDTF>2007-06-05T10:45:11+12:00</dcterms:W3CDTF>
</rdf:Description>
<rdf:Description rdf:about="/R">
<dcterms:alternative>Receptor</dcterms:alternative>
<dc:title>R</dc:title>
</rdf:Description>
<rdf:Description rdf:about="/S">
<dcterms:alternative>Shut state</dcterms:alternative>
<dc:title>S</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#2b0b970c-3794-4508-8999-7edbf7adeb0e">
<dcterms:W3CDTF>2007-05-24T08:10:03+12:00</dcterms:W3CDTF>
</rdf:Description>
<rdf:Description rdf:about="rdf:#d222b477-b54b-48d5-842e-ae09a9a11530">
<vCard:ORG rdf:resource="rdf:#35ad1886-9cab-44b7-8756-237b235f3ae8"/>
<vCard:EMAIL rdf:resource="rdf:#a8ab691f-d35c-49a9-b512-886d9896095b"/>
<vCard:N rdf:resource="rdf:#67d268c3-19f0-420c-9721-31f6f32f6324"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#8de13f80-a3fe-45a0-820f-328debc8faa1">
<bqs:subject_type>keyword</bqs:subject_type>
<rdf:value rdf:resource="rdf:#b865b3df-b00a-4e44-a8ce-886187f7eea9"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#34ba7e21-a71a-42c1-b9f8-b5f4cdf10238">
<dcterms:modified rdf:resource="rdf:#f2f72219-83b7-4a26-bcc9-29a1701dd667"/>
<rdf:value>The new version of this model has been re-coded to remove the reaction element and replace it with a simple MathML description of the model reaction kinetics. This is thought to be truer to the original publication, and information regarding the enzyme kinetics etc will later be added to the metadata through use of an ontology.
The model runs in the PCEnv simulator and gives a nice curved output.</rdf:value>
<cmeta:modifier rdf:resource="rdf:#c581990a-df08-484b-8f3d-de84e02c2b7a"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#9495dff1-73e0-413c-aadf-7967fca1ffb7">
<dc:creator rdf:resource="rdf:#6111cd36-0957-42ed-a020-0a413b58e32e"/>
<dc:title>A dynamic model of the type-2 inositol triphosphate receptor</dc:title>
<bqs:volume>99</bqs:volume>
<bqs:first_page>2398</bqs:first_page>
<bqs:Journal rdf:resource="rdf:#cef5a763-b1c9-4c6b-8bc9-9daaa5b9e08a"/>
<dcterms:issued rdf:resource="rdf:#cd8712b1-d799-48cd-b7ca-42ef82b1ed24"/>
<bqs:last_page>2403</bqs:last_page>
</rdf:Description>
<rdf:Description rdf:about="rdf:#35ad1886-9cab-44b7-8756-237b235f3ae8">
<vCard:Orgname>The University of Auckland</vCard:Orgname>
<vCard:Orgunit>The Bioengineering Institute</vCard:Orgunit>
</rdf:Description>
<rdf:Description rdf:about="rdf:#831499e1-8b9d-4194-a720-c3b8c89d806c">
<vCard:Given>James</vCard:Given>
<vCard:Family>Sneyd</vCard:Family>
</rdf:Description>
<rdf:Description rdf:about="rdf:#26734d27-c924-44b8-aa7f-f2a76a180491">
<vCard:Given>Jean-Francois</vCard:Given>
<vCard:Family>Dufour</vCard:Family>
</rdf:Description>
<rdf:Description rdf:about="rdf:#1e5ab40f-1204-4fb3-b0d3-e4eacac36090">
<vCard:FN>Catherine Lloyd</vCard:FN>
</rdf:Description>
<rdf:Description rdf:about="rdf:#f9b5f6cb-de92-4bdd-829c-b9ef7252d9c8">
<vCard:Given>Catherine</vCard:Given>
<vCard:Family>Lloyd</vCard:Family>
<vCard:Other>May</vCard:Other>
</rdf:Description>
<rdf:Description rdf:about="rdf:#31ab70d4-dd42-4248-badc-de88f84942c2">
<vCard:Given>Catherine</vCard:Given>
<vCard:Family>Lloyd</vCard:Family>
<vCard:Other>May</vCard:Other>
</rdf:Description>
<rdf:Description rdf:about="rdf:#600a325c-8a8b-43ac-b8d7-625a5b7d799b">
<rdf:type rdf:resource="http://www.cellml.org/bqs/1.0#Person"/>
<vCard:N rdf:resource="rdf:#26734d27-c924-44b8-aa7f-f2a76a180491"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#c581990a-df08-484b-8f3d-de84e02c2b7a">
<vCard:N rdf:resource="rdf:#f9b5f6cb-de92-4bdd-829c-b9ef7252d9c8"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#06465ad8-e922-4b22-8d2e-a63d6de45d0c">
<dc:creator rdf:resource="rdf:#1e5ab40f-1204-4fb3-b0d3-e4eacac36090"/>
<rdf:value>This is the CellML description of Sneyd and Dufour's 2002 dynamic
model of type-2 inositol triphosphate receptor. The dynamic
properties of this receptor are essential for the control of
intracellular calcium, including the generation of calcium
oscillations and waves.</rdf:value>
</rdf:Description>
<rdf:Description rdf:about="rdf:#a8ab691f-d35c-49a9-b512-886d9896095b">
<rdf:type rdf:resource="http://imc.org/vCard/3.0#internet"/>
<rdf:value>c.lloyd@auckland.ac.nz</rdf:value>
</rdf:Description>
<rdf:Description rdf:about="/I_1">
<dcterms:alternative>Inactive state 1</dcterms:alternative>
<dc:title>I_1</dc:title>
</rdf:Description>
<rdf:Description rdf:about="/I_2">
<dcterms:alternative>Inactive state 2</dcterms:alternative>
<dc:title>I_1</dc:title>
</rdf:Description>
<rdf:Description rdf:about="rdf:#0585328f-cbc9-4041-96cb-f7a0033edd46">
<dc:creator rdf:resource="rdf:#2aa54fd4-e809-41fd-bda4-e52b56340014"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#292f31fd-3a27-479c-994d-5e112c60017a">
<rdf:type rdf:resource="http://www.cellml.org/bqs/1.0#Person"/>
<vCard:N rdf:resource="rdf:#831499e1-8b9d-4194-a720-c3b8c89d806c"/>
</rdf:Description>
<rdf:Description rdf:about="#sneyd_model_2002_version02">
<dc:title>
The Sneyd-Dufour 2002 dynamic model of the type-2 inositol triphosphate
receptor.
</dc:title>
<cmeta:comment rdf:resource="rdf:#06465ad8-e922-4b22-8d2e-a63d6de45d0c"/>
<bqs:reference rdf:resource="rdf:#9249daff-b2ed-4a5a-aa13-f3384eb279ff"/>
<bqs:reference rdf:resource="rdf:#c339100b-a635-424f-bcba-ce571d03dbab"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#29bca02a-d2e6-42a9-a72d-ee3bd1c02895">
<dcterms:modified rdf:resource="rdf:#2b0b970c-3794-4508-8999-7edbf7adeb0e"/>
<rdf:value>Corrected two of the equations.</rdf:value>
<cmeta:modifier rdf:resource="rdf:#078e99d0-2315-42a3-bf2b-b1698d1bb949"/>
</rdf:Description>
<rdf:Description rdf:about="rdf:#cd8712b1-d799-48cd-b7ca-42ef82b1ed24">
<dcterms:W3CDTF>2002-02-19</dcterms:W3CDTF>
</rdf:Description>
<rdf:Description rdf:about="rdf:#c339100b-a635-424f-bcba-ce571d03dbab">
<bqs:Pubmed_id>11842185</bqs:Pubmed_id>
<bqs:JournalArticle rdf:resource="rdf:#9495dff1-73e0-413c-aadf-7967fca1ffb7"/>
</rdf:Description>
</rdf:RDF>
</model>
