- Author:
- neilstephen2001 <npar276@aucklanduni.ac.nz>
- Date:
- 2021-01-26 14:35:03+13:00
- Desc:
- modifying rdf files
- Permanent Source URI:
- https://models.cellml.org/workspace/7f1/rawfile/4d6408caaf3e7b1b86d33d53d26105360ef95347/marhl_haberichter_brumen_heinrich_2000/model/marhl_haberichter_brumen_heinrich_2000.cellml
<?xml version="1.0" encoding="UTF-8"?>
<model xmlns="http://www.cellml.org/cellml/1.1#" xmlns:cmeta="http://www.cellml.org/metadata/1.0#" xmlns:xlink="http://www.w3.org/1999/xlink" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqs="http://www.cellml.org/bqs/1.0#" xmlns:semsim="http://www.bhi.washington.edu/SemSim#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" name="marhl_haberichter_brumen_heinrich_2000" cmeta:id="marhl_2000">
<documentation xmlns="http://cellml.org/tmp-documentation">
<article>
<articleinfo>
<title>Complex Calcium Oscillations and the Role of Mitochondria and Cytosolic Proteins</title>
<author>
<firstname>Catherine</firstname>
<surname>Lloyd</surname>
<affiliation>
<shortaffil>Auckland Bioengineering Institute, The University of Auckland</shortaffil>
</affiliation>
</author>
</articleinfo>
<section id="sec_status">
<title>Model Status</title>
<para>This CellML model runs in both OpenCell and COR to recreate the published results. The units have been checked and are consistent.</para>
</section>
<sect1 id="sec_structure">
<title>Model Structure</title>
<para>ABSTRACT: Intracellular calcium oscillations, which are oscillatory changes of cytosolic calcium concentration in response to agonist stimulation, are experimentally well observed in various living cells. Simple calcium oscillations represent the most common pattern and many mathematical models have been published to describe this type of oscillation. On the other hand, relatively few theoretical studies have been proposed to give an explanation of complex intracellular calcium oscillations, such as bursting and chaos. In this paper, we develop a new possible mechanism for complex calcium oscillations based on the interplay between three calcium stores in the cell: the endoplasmic reticulum (ER), mitochondria and cytosolic proteins. The majority ( approximately 80%) of calcium released from the ER is first very quickly sequestered by mitochondria. Afterwards, a much slower release of calcium from the mitochondria serves as the calcium supply for the intermediate calcium exchanges between the ER and the cytosolic proteins causing bursting calcium oscillations. Depending on the permeability of the ER channels and on the kinetic properties of calcium binding to the cytosolic proteins, different patterns of complex calcium oscillations appear. With our model, we are able to explain simple calcium oscillations, bursting and chaos. Chaos is also observed for calcium oscillations in the bursting mode.</para>
<para>The original paper reference is cited below:</para>
<para>
Complex calcium oscillations and the role of mitochondria and cytosolic proteins, Marko Marhl, Thomas Haberichter, Milan Brumen and Reinhart Heinrich, 2000,
<emphasis>Biosystems</emphasis>
, 57, 75-86.
<ulink url="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=11004387&dopt=Abstract">PubMed ID: 11004387</ulink>
</para>
<informalfigure float="0" id="fig_cell_diagram">
<mediaobject>
<imageobject>
<objectinfo>
<title>cell schematic for the model</title>
</objectinfo>
<imagedata fileref="marhl_2000.png" />
</imageobject>
</mediaobject>
<caption>Schematic diagram of the model sysytem.</caption>
</informalfigure>
</sect1>
</article>
</documentation>
<units name="first_order_rate_constant">
<unit exponent="-1.0" units="second" />
</units>
<units name="second_order_rate_constant">
<unit exponent="-1.0" units="second" />
<unit exponent="-1.0" units="micromolar" />
</units>
<units name="micromolar">
<unit exponent="-1.0" units="litre" />
<unit prefix="micro" units="mole" />
</units>
<units name="flux">
<unit exponent="-1.0" units="second" />
<unit units="micromolar" />
</units>
<component name="environment">
<variable cmeta:id="environment_time" name="time" public_interface="out" units="second" />
</component>
<component name="total_calcium">
<variable cmeta:id="total_calcium_Ca_Pr" name="Ca_Pr" public_interface="out" units="micromolar" />
<variable cmeta:id="total_calcium.Ca_tot" initial_value="90.0" name="Ca_tot" units="micromolar" />
<variable cmeta:id="total_calcium.rho_ER" name="rho_ER" public_interface="in" units="dimensionless" />
<variable cmeta:id="total_calcium.beta_ER" name="beta_ER" public_interface="in" units="dimensionless" />
<variable cmeta:id="total_calcium.rho_m" name="rho_m" public_interface="in" units="dimensionless" />
<variable cmeta:id="total_calcium.beta_m" name="beta_m" public_interface="in" units="dimensionless" />
<variable cmeta:id="total_calcium.Ca_cyt" name="Ca_cyt" public_interface="in" units="micromolar" />
<variable cmeta:id="total_calcium.Ca_ER" name="Ca_ER" public_interface="in" units="micromolar" />
<variable cmeta:id="total_calcium.Ca_m" name="Ca_m" public_interface="in" units="micromolar" />
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="Ca_Pr_calculation">
<eq />
<ci>Ca_Pr</ci>
<apply>
<minus />
<ci>Ca_tot</ci>
<apply>
<plus />
<ci>Ca_cyt</ci>
<apply>
<times />
<apply>
<divide />
<ci>rho_ER</ci>
<ci>beta_ER</ci>
</apply>
<ci>Ca_ER</ci>
</apply>
<apply>
<times />
<apply>
<divide />
<ci>rho_m</ci>
<ci>beta_m</ci>
</apply>
<ci>Ca_m</ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="total_protein">
<variable cmeta:id="total_protein.Pr" name="Pr" public_interface="out" units="micromolar" />
<variable cmeta:id="total_protein.Pr_tot" initial_value="120.0" name="Pr_tot" units="micromolar" />
<variable cmeta:id="total_protein.Ca_Pr" name="Ca_Pr" public_interface="in" units="micromolar" />
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="Pr_calculation">
<eq />
<ci>Pr</ci>
<apply>
<minus />
<ci>Pr_tot</ci>
<ci>Ca_Pr</ci>
</apply>
</apply>
</math>
</component>
<component name="cytosolic_calcium">
<variable cmeta:id="cytosolic_calcium_Ca_cyt" initial_value="0.05" name="Ca_cyt" public_interface="out" units="micromolar" />
<variable cmeta:id="cytosolic_calcium.k_plus" initial_value="0.1" name="k_plus" units="second_order_rate_constant" />
<variable cmeta:id="cytosolic_calcium.k_minus" initial_value="0.01" name="k_minus" units="first_order_rate_constant" />
<variable cmeta:id="cytosolic_calcium.Pr" name="Pr" public_interface="in" units="micromolar" />
<variable cmeta:id="cytosolic_calcium.Ca_Pr" name="Ca_Pr" public_interface="in" units="micromolar" />
<variable cmeta:id="cytosolic_calcium.J_ch" name="J_ch" public_interface="in" units="flux" />
<variable cmeta:id="cytosolic_calcium.J_leak" name="J_leak" public_interface="in" units="flux" />
<variable cmeta:id="cytosolic_calcium.J_pump" name="J_pump" public_interface="in" units="flux" />
<variable cmeta:id="cytosolic_calcium.J_out" name="J_out" public_interface="in" units="flux" />
<variable cmeta:id="cytosolic_calcium.J_in" name="J_in" public_interface="in" units="flux" />
<variable cmeta:id="cytosolic_calcium.time" name="time" public_interface="in" units="second" />
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="Ca_cyt_diff_eq">
<eq />
<apply>
<diff />
<bvar>
<ci>time</ci>
</bvar>
<ci>Ca_cyt</ci>
</apply>
<apply>
<minus />
<apply>
<plus />
<ci>J_ch</ci>
<ci>J_leak</ci>
<ci>J_out</ci>
<apply>
<times />
<ci>k_minus</ci>
<ci>Ca_Pr</ci>
</apply>
</apply>
<apply>
<plus />
<ci>J_pump</ci>
<ci>J_in</ci>
<apply>
<times />
<ci>k_plus</ci>
<ci>Ca_cyt</ci>
<ci>Pr</ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="ER_calcium">
<variable cmeta:id="ER_calcium.Ca_ER" initial_value="1.0" name="Ca_ER" public_interface="out" units="micromolar" />
<variable cmeta:id="ER_calcium.rho_ER" initial_value="0.01" name="rho_ER" public_interface="out" units="dimensionless" />
<variable cmeta:id="ER_calcium.beta_ER" initial_value="0.0025" name="beta_ER" public_interface="out" units="dimensionless" />
<variable cmeta:id="ER_calcium.J_ch" name="J_ch" public_interface="in" units="flux" />
<variable cmeta:id="ER_calcium.J_leak" name="J_leak" public_interface="in" units="flux" />
<variable cmeta:id="ER_calcium.J_pump" name="J_pump" public_interface="in" units="flux" />
<variable cmeta:id="ER_calcium.time" name="time" public_interface="in" units="second" />
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="Ca_ER_diff_eq">
<eq />
<apply>
<diff />
<bvar>
<ci>time</ci>
</bvar>
<ci>Ca_ER</ci>
</apply>
<apply>
<times />
<apply>
<divide />
<ci>beta_ER</ci>
<ci>rho_ER</ci>
</apply>
<apply>
<minus />
<ci>J_pump</ci>
<apply>
<plus />
<ci>J_ch</ci>
<ci>J_leak</ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="mitochondrial_calcium">
<variable cmeta:id="mitochondrial_calcium.Ca_m" initial_value="0.4" name="Ca_m" public_interface="out" units="micromolar" />
<variable cmeta:id="mitochondrial_calcium.rho_m" initial_value="0.01" name="rho_m" public_interface="out" units="dimensionless" />
<variable cmeta:id="mitochondrial_calcium.beta_m" initial_value="0.0025" name="beta_m" public_interface="out" units="dimensionless" />
<variable cmeta:id="mitochondrial_calcium.J_in" name="J_in" public_interface="in" units="flux" />
<variable cmeta:id="mitochondrial_calcium.J_out" name="J_out" public_interface="in" units="flux" />
<variable cmeta:id="mitochondrial_calcium.time" name="time" public_interface="in" units="second" />
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="Ca_m_diff_eq">
<eq />
<apply>
<diff />
<bvar>
<ci>time</ci>
</bvar>
<ci>Ca_m</ci>
</apply>
<apply>
<times />
<apply>
<divide />
<ci>beta_m</ci>
<ci>rho_m</ci>
</apply>
<apply>
<minus />
<ci>J_in</ci>
<ci>J_out</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="ATP_dependent_Ca_uptake_into_the_ER">
<variable cmeta:id="ATP_dependent_Ca_uptake_into_the_ER_J_pump" name="J_pump" public_interface="out" units="flux" />
<variable cmeta:id="ATP_dependent_Ca_uptake_into_the_ER.k_pump" initial_value="20.0" name="k_pump" units="first_order_rate_constant" />
<variable cmeta:id="ATP_dependent_Ca_uptake_into_the_ER.Ca_cyt" name="Ca_cyt" public_interface="in" units="micromolar" />
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="J_pump_calculation">
<eq />
<ci>J_pump</ci>
<apply>
<times />
<ci>k_pump</ci>
<ci>Ca_cyt</ci>
</apply>
</apply>
</math>
</component>
<component name="Ca_efflux_from_the_ER">
<variable cmeta:id="Ca_efflux_from_the_ER_J_ch" name="J_ch" public_interface="out" units="flux" />
<variable cmeta:id="Ca_efflux_from_the_ER.k_ch" initial_value="4100.0" name="k_ch" units="first_order_rate_constant" />
<variable cmeta:id="Ca_efflux_from_the_ER.K1" initial_value="5.0" name="K1" units="micromolar" />
<variable cmeta:id="Ca_efflux_from_the_ER.Ca_cyt" name="Ca_cyt" public_interface="in" units="micromolar" />
<variable cmeta:id="Ca_efflux_from_the_ER.Ca_ER" name="Ca_ER" public_interface="in" units="micromolar" />
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="J_ch_calculation">
<eq />
<ci>J_ch</ci>
<apply>
<times />
<ci>k_ch</ci>
<apply>
<divide />
<apply>
<power />
<ci>Ca_cyt</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.0#" cellml:units="dimensionless">2.0</cn>
</apply>
<apply>
<plus />
<apply>
<power />
<ci>K1</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.0#" cellml:units="dimensionless">2.0</cn>
</apply>
<apply>
<power />
<ci>Ca_cyt</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.0#" cellml:units="dimensionless">2.0</cn>
</apply>
</apply>
</apply>
<apply>
<minus />
<ci>Ca_ER</ci>
<ci>Ca_cyt</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="Ca_leak_flux_from_the_ER">
<variable cmeta:id="Ca_leak_flux_from_the_ER_J_leak" name="J_leak" public_interface="out" units="flux" />
<variable cmeta:id="Ca_leak_flux_from_the_ER.k_leak" initial_value="0.05" name="k_leak" units="first_order_rate_constant" />
<variable cmeta:id="Ca_leak_flux_from_the_ER.Ca_cyt" name="Ca_cyt" public_interface="in" units="micromolar" />
<variable cmeta:id="Ca_leak_flux_from_the_ER.Ca_ER" name="Ca_ER" public_interface="in" units="micromolar" />
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="J_leak_calculation">
<eq />
<ci>J_leak</ci>
<apply>
<times />
<ci>k_leak</ci>
<apply>
<minus />
<ci>Ca_ER</ci>
<ci>Ca_cyt</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="mitochondrial_Ca_uptake">
<variable cmeta:id="mitochondrial_Ca_uptake_J_in" name="J_in" public_interface="out" units="flux" />
<variable cmeta:id="mitochondrial_Ca_uptake.k_in" initial_value="300.0" name="k_in" units="flux" />
<variable cmeta:id="mitochondrial_Ca_uptake.K2" initial_value="0.8" name="K2" units="micromolar" />
<variable cmeta:id="mitochondrial_Ca_uptake.Ca_cyt" name="Ca_cyt" public_interface="in" units="micromolar" />
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="J_in_calculation">
<eq />
<ci>J_in</ci>
<apply>
<times />
<ci>k_in</ci>
<apply>
<divide />
<apply>
<power />
<ci>Ca_cyt</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.0#" cellml:units="dimensionless">8.0</cn>
</apply>
<apply>
<plus />
<apply>
<power />
<ci>K2</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.0#" cellml:units="dimensionless">8.0</cn>
</apply>
<apply>
<power />
<ci>Ca_cyt</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.0#" cellml:units="dimensionless">8.0</cn>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="mitochondrial_Ca_release">
<variable cmeta:id="mitochondrial_Ca_release_J_out" name="J_out" public_interface="out" units="flux" />
<variable cmeta:id="mitochondrial_Ca_release.k_out" initial_value="125.0" name="k_out" units="first_order_rate_constant" />
<variable cmeta:id="mitochondrial_Ca_release.k_m" initial_value="0.00625" name="k_m" units="first_order_rate_constant" />
<variable cmeta:id="mitochondrial_Ca_release.K3" initial_value="5.0" name="K3" units="micromolar" />
<variable cmeta:id="mitochondrial_Ca_release.Ca_cyt" name="Ca_cyt" public_interface="in" units="micromolar" />
<variable cmeta:id="mitochondrial_Ca_release.Ca_m" name="Ca_m" public_interface="in" units="micromolar" />
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="J_out_calculation">
<eq />
<ci>J_out</ci>
<apply>
<times />
<apply>
<plus />
<apply>
<times />
<ci>k_out</ci>
<apply>
<divide />
<apply>
<power />
<ci>Ca_cyt</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.0#" cellml:units="dimensionless">2.0</cn>
</apply>
<apply>
<plus />
<apply>
<power />
<ci>K3</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.0#" cellml:units="dimensionless">2.0</cn>
</apply>
<apply>
<power />
<ci>Ca_cyt</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.0#" cellml:units="dimensionless">2.0</cn>
</apply>
</apply>
</apply>
</apply>
<ci>k_m</ci>
</apply>
<ci>Ca_m</ci>
</apply>
</apply>
</math>
</component>
<connection>
<map_components component_1="environment" component_2="mitochondrial_calcium" />
<map_variables variable_1="time" variable_2="time" />
</connection>
<connection>
<map_components component_1="mitochondrial_Ca_uptake" component_2="cytosolic_calcium" />
<map_variables variable_1="J_in" variable_2="J_in" />
</connection>
<connection>
<map_components component_1="cytosolic_calcium" component_2="Ca_efflux_from_the_ER" />
<map_variables variable_1="Ca_cyt" variable_2="Ca_cyt" />
</connection>
<connection>
<map_components component_1="ER_calcium" component_2="Ca_efflux_from_the_ER" />
<map_variables variable_1="Ca_ER" variable_2="Ca_ER" />
</connection>
<connection>
<map_components component_1="ER_calcium" component_2="Ca_leak_flux_from_the_ER" />
<map_variables variable_1="Ca_ER" variable_2="Ca_ER" />
</connection>
<connection>
<map_components component_1="cytosolic_calcium" component_2="Ca_leak_flux_from_the_ER" />
<map_variables variable_1="Ca_cyt" variable_2="Ca_cyt" />
</connection>
<connection>
<map_components component_1="total_protein" component_2="cytosolic_calcium" />
<map_variables variable_1="Pr" variable_2="Pr" />
</connection>
<connection>
<map_components component_1="Ca_leak_flux_from_the_ER" component_2="ER_calcium" />
<map_variables variable_1="J_leak" variable_2="J_leak" />
</connection>
<connection>
<map_components component_1="ATP_dependent_Ca_uptake_into_the_ER" component_2="cytosolic_calcium" />
<map_variables variable_1="J_pump" variable_2="J_pump" />
</connection>
<connection>
<map_components component_1="environment" component_2="ER_calcium" />
<map_variables variable_1="time" variable_2="time" />
</connection>
<connection>
<map_components component_1="cytosolic_calcium" component_2="total_calcium" />
<map_variables variable_1="Ca_cyt" variable_2="Ca_cyt" />
</connection>
<connection>
<map_components component_1="total_calcium" component_2="total_protein" />
<map_variables variable_1="Ca_Pr" variable_2="Ca_Pr" />
</connection>
<connection>
<map_components component_1="cytosolic_calcium" component_2="mitochondrial_Ca_release" />
<map_variables variable_1="Ca_cyt" variable_2="Ca_cyt" />
</connection>
<connection>
<map_components component_1="Ca_efflux_from_the_ER" component_2="cytosolic_calcium" />
<map_variables variable_1="J_ch" variable_2="J_ch" />
</connection>
<connection>
<map_components component_1="mitochondrial_calcium" component_2="total_calcium" />
<map_variables variable_1="Ca_m" variable_2="Ca_m" />
<map_variables variable_1="rho_m" variable_2="rho_m" />
<map_variables variable_1="beta_m" variable_2="beta_m" />
</connection>
<connection>
<map_components component_1="mitochondrial_Ca_uptake" component_2="mitochondrial_calcium" />
<map_variables variable_1="J_in" variable_2="J_in" />
</connection>
<connection>
<map_components component_1="mitochondrial_Ca_release" component_2="cytosolic_calcium" />
<map_variables variable_1="J_out" variable_2="J_out" />
</connection>
<connection>
<map_components component_1="ER_calcium" component_2="total_calcium" />
<map_variables variable_1="beta_ER" variable_2="beta_ER" />
<map_variables variable_1="rho_ER" variable_2="rho_ER" />
<map_variables variable_1="Ca_ER" variable_2="Ca_ER" />
</connection>
<connection>
<map_components component_1="cytosolic_calcium" component_2="mitochondrial_Ca_uptake" />
<map_variables variable_1="Ca_cyt" variable_2="Ca_cyt" />
</connection>
<connection>
<map_components component_1="environment" component_2="cytosolic_calcium" />
<map_variables variable_1="time" variable_2="time" />
</connection>
<connection>
<map_components component_1="total_calcium" component_2="cytosolic_calcium" />
<map_variables variable_1="Ca_Pr" variable_2="Ca_Pr" />
</connection>
<connection>
<map_components component_1="Ca_leak_flux_from_the_ER" component_2="cytosolic_calcium" />
<map_variables variable_1="J_leak" variable_2="J_leak" />
</connection>
<connection>
<map_components component_1="mitochondrial_Ca_release" component_2="mitochondrial_calcium" />
<map_variables variable_1="J_out" variable_2="J_out" />
</connection>
<connection>
<map_components component_1="mitochondrial_calcium" component_2="mitochondrial_Ca_release" />
<map_variables variable_1="Ca_m" variable_2="Ca_m" />
</connection>
<connection>
<map_components component_1="ATP_dependent_Ca_uptake_into_the_ER" component_2="ER_calcium" />
<map_variables variable_1="J_pump" variable_2="J_pump" />
</connection>
<connection>
<map_components component_1="cytosolic_calcium" component_2="ATP_dependent_Ca_uptake_into_the_ER" />
<map_variables variable_1="Ca_cyt" variable_2="Ca_cyt" />
</connection>
<connection>
<map_components component_1="Ca_efflux_from_the_ER" component_2="ER_calcium" />
<map_variables variable_1="J_ch" variable_2="J_ch" />
</connection>
<rdf:RDF xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:ro="http://www.obofoundry.org/ro/ro.owl#" xmlns:opb="http://bhi.washington.edu/OPB#">
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#mitochondrial_calcium.beta_m">
<dcterms:description>fraction of free mitochondrial calcium concentration to total cellular calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#total_calcium.Ca_cyt">
<bqbiol:isPropertyOf>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#entity_0">
<bqbiol:is rdf:resource="http://identifiers.org/go/GO:0005829" />
</rdf:Description>
</bqbiol:isPropertyOf>
<dcterms:description>concentration of free cytosolic calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#Ca_efflux_from_the_ER.Ca_ER">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_28">
<semsim:physicalPropertyOf>
<rdf:Description rdf:about="#entity_3">
<ro:part_of>
<rdf:Description rdf:about="#entity_4">
<semsim:hasPhysicalDefinition rdf:resource="http://identifiers.org/fma/FMA:63842" />
</rdf:Description>
</ro:part_of>
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/chebi/CHEBI:29108" />
</rdf:Description>
</semsim:physicalPropertyOf>
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of free calcium in the endoplasmic reticulum</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#Ca_leak_flux_from_the_ER.k_leak">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
<dcterms:description>rate constant for calcium leak flux through the endoplasmic reticulum membrane</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#mitochondrial_calcium.rho_m">
<dcterms:description>volume ratio between the mitochondria and cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#mitochondrial_Ca_release.Ca_m">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_38">
<semsim:physicalPropertyOf>
<rdf:Description rdf:about="#entity_5">
<ro:part_of>
<rdf:Description rdf:about="#entity_6">
<semsim:hasPhysicalDefinition rdf:resource="http://identifiers.org/fma/FMA:66861" />
</rdf:Description>
</ro:part_of>
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/chebi/CHEBI:29108" />
</rdf:Description>
</semsim:physicalPropertyOf>
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of free calcium in the mitochondria</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#mitochondrial_calcium.J_out">
<dcterms:description>calcium release flux from the mitochondria by sodium-calcium exchangers</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#ER_calcium.J_ch">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_17">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00593" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>calcium channel flux from the endoplasmic reticulum to the cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#Ca_efflux_from_the_ER.Ca_cyt">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_0" />
<dcterms:description>concentration of free cytosolic calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#cytosolic_calcium.J_leak">
<dcterms:description>calcium leak flux from the endoplasmic reticulum into the cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#mitochondrial_Ca_uptake.k_in">
<dcterms:description>maximal permeability of uniporters in the mitochondrial membrane</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#cytosolic_calcium.J_out">
<dcterms:description>calcium release flux from the mitochondria by sodium-calcium exchangers</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#total_calcium_Ca_Pr">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_0" />
<dcterms:description>concentration of calcium-bound cytosolic proteins</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#Ca_leak_flux_from_the_ER.Ca_cyt">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_0" />
<dcterms:description>concentration of free cytosolic calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#cytosolic_calcium.J_ch">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_11">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00593" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>calcium channel flux from the endoplasmic reticulum to the cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#mitochondrial_Ca_release_J_out">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_35">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00593" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>calcium release flux from the mitochondria by sodium-calcium exchangers</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#total_calcium.Ca_tot">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_1">
<semsim:physicalPropertyOf>
<rdf:Description rdf:about="#entity_2">
<ro:part_of>
<rdf:Description rdf:about="#entity_1">
<semsim:hasPhysicalDefinition rdf:resource="http://identifiers.org/go/GO:0005829" />
</rdf:Description>
</ro:part_of>
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/chebi/CHEBI:29108" />
</rdf:Description>
</semsim:physicalPropertyOf>
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of total cellular calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#ATP_dependent_Ca_uptake_into_the_ER.Ca_cyt">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_24">
<semsim:physicalPropertyOf rdf:resource="#entity_2" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of free cytosolic calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#mitochondrial_Ca_uptake_J_in">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_32">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00593" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>calcium uptake flux into the mitochondria by uniporters</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#total_protein.Pr_tot">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_6">
<semsim:physicalPropertyOf>
<rdf:Description rdf:about="#entity_0">
<ro:part_of rdf:resource="#entity_1" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/chebi/CHEBI:36080" />
</rdf:Description>
</semsim:physicalPropertyOf>
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of total protein</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#cytosolic_calcium_Ca_cyt">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_8">
<semsim:physicalPropertyOf rdf:resource="#entity_2" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of free cytosolic calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#cytosolic_calcium.time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="#cytosolic_calcium.J_out">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_14">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00593" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>calcium release flux from the mitochondria by sodium-calcium exchangers</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#total_calcium.beta_m">
<dcterms:description>fraction of free mitochondrial calcium concentration to total cellular calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#mitochondrial_Ca_uptake.k_in">
<dcterms:description>maximal permeability of uniporters in the mitochondrial membrane</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#mitochondrial_Ca_release.K3">
<bqbiol:isPropertyOf>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#entity_3">
<bqbiol:is rdf:resource="http://identifiers.org/fma/FMA:66861" />
</rdf:Description>
</bqbiol:isPropertyOf>
<dcterms:description>calcium concentration for half-saturation of sodium-calcium exchangers</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#total_protein.Ca_Pr">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_0" />
<dcterms:description>concentration of calcium-bound cytosolic proteins</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#cytosolic_calcium.time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="#ER_calcium.J_leak">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_18">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00593" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>calcium leak flux from the endoplasmic reticulum into the cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#mitochondrial_calcium.J_out">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_22">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00593" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>calcium release flux from the mitochondria by sodium-calcium exchangers</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#mitochondrial_calcium.beta_m">
<dcterms:description>fraction of free mitochondrial calcium concentration to total cellular calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#ER_calcium.Ca_ER">
<bqbiol:isPropertyOf>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#entity_1">
<bqbiol:is rdf:resource="http://identifiers.org/fma/FMA:63842" />
</rdf:Description>
</bqbiol:isPropertyOf>
<dcterms:description>concentration of free calcium in the endoplasmic reticulum</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#environment_time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#mitochondrial_Ca_release.Ca_cyt">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_0" />
<dcterms:description>concentration of free cytosolic calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#cytosolic_calcium.k_minus">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
<dcterms:description>off-rate constant for calcium binding to protein</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#total_protein.Ca_Pr">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_7">
<semsim:physicalPropertyOf rdf:resource="#entity_0" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of calcium-bound cytosolic proteins</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#mitochondrial_Ca_uptake_J_in">
<dcterms:description>calcium uptake flux into the mitochondria by uniporters</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#ER_calcium.time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#Ca_leak_flux_from_the_ER.Ca_ER">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_1" />
<dcterms:description>concentration of free calcium in the endoplasmic reticulum</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#ER_calcium.J_leak">
<dcterms:description>calcium leak flux from the endoplasmic reticulum into the cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#mitochondrial_calcium.time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#ER_calcium.beta_ER">
<dcterms:description>fraction of free endoplasmic reticulum calcium concentration to total cellular calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#mitochondrial_Ca_release_J_out">
<dcterms:description>calcium release flux from the mitochondria by sodium-calcium exchangers</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#Ca_efflux_from_the_ER.Ca_ER">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_1" />
<dcterms:description>concentration of free calcium in the endoplasmic reticulum</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#Ca_leak_flux_from_the_ER.Ca_cyt">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_30">
<semsim:physicalPropertyOf rdf:resource="#entity_2" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of free cytosolic calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#total_calcium.Ca_m">
<bqbiol:isPropertyOf>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#entity_2">
<bqbiol:is rdf:resource="http://identifiers.org/fma/FMA:63835" />
</rdf:Description>
</bqbiol:isPropertyOf>
<dcterms:description>concentration of free calcium in the mitochondria</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#total_calcium.Ca_ER">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_3">
<semsim:physicalPropertyOf rdf:resource="#entity_3" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of free calcium in the endoplasmic reticulum</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#Ca_efflux_from_the_ER.Ca_cyt">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_27">
<semsim:physicalPropertyOf rdf:resource="#entity_2" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of free cytosolic calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#Ca_efflux_from_the_ER_J_ch">
<dcterms:description>calcium channel flux from the endoplasmic reticulum to the cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#mitochondrial_calcium.Ca_m">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_2" />
<dcterms:description>concentration of free calcium in the mitochondria</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#total_protein.Pr">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_0" />
<dcterms:description>concentration of unbound cytosolic proteins</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#total_calcium.Ca_cyt">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_2">
<semsim:physicalPropertyOf rdf:resource="#entity_2" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of free cytosolic calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#total_calcium.beta_ER">
<dcterms:description>fraction of free endoplasmic reticulum calcium concentration to total cellular calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#mitochondrial_Ca_uptake.K2">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_33">
<semsim:physicalPropertyOf rdf:resource="#entity_5" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>calcium concentration for half-saturation of calcium uniporters in mitochondrial membrane</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#Ca_leak_flux_from_the_ER.Ca_ER">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_31">
<semsim:physicalPropertyOf rdf:resource="#entity_3" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of free calcium in the endoplasmic reticulum</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#Ca_leak_flux_from_the_ER.k_leak">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
<dcterms:description>rate constant for calcium leak flux through the endoplasmic reticulum membrane</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#cytosolic_calcium.J_in">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_15">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00593" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>calcium uptake flux into the mitochondria by uniporters</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#total_calcium.Ca_m">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_4">
<semsim:physicalPropertyOf rdf:resource="#entity_5" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of free calcium in the mitochondria</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#cytosolic_calcium.J_leak">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_12">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00593" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>calcium leak flux from the endoplasmic reticulum into the cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#Ca_leak_flux_from_the_ER_J_leak">
<dcterms:description>calcium leak flux from the endoplasmic reticulum into the cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#Ca_leak_flux_from_the_ER_J_leak">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_29">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00593" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>calcium leak flux from the endoplasmic reticulum into the cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#mitochondrial_Ca_release.k_m">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
<dcterms:description>rate constant for non-specific leak flux</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#ATP_dependent_Ca_uptake_into_the_ER_J_pump">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_23">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00593" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>ATP-dependent calcium flux from the cytosol into the endoplasmic reticulum</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#total_calcium.beta_ER">
<dcterms:description>fraction of free endoplasmic reticulum calcium concentration to total cellular calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#cytosolic_calcium.J_pump">
<dcterms:description>ATP-dependent calcium flux from the cytosol into the endoplasmic reticulum</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#total_calcium.rho_m">
<dcterms:description>volume ratio between the mitochondria and cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#cytosolic_calcium.k_plus">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
<dcterms:description>on-rate constant for calcium binding to protein</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#cytosolic_calcium.Ca_Pr">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_10">
<semsim:physicalPropertyOf rdf:resource="#entity_0" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of calcium-bound cytosolic proteins</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#cytosolic_calcium.J_pump">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_13">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00593" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>ATP-dependent calcium flux from the cytosol into the endoplasmic reticulum</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#Ca_efflux_from_the_ER_J_ch">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_25">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00593" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>calcium channel flux from the endoplasmic reticulum to the cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#total_calcium.Ca_ER">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_1" />
<dcterms:description>concentration of free calcium in the endoplasmic reticulum</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#cytosolic_calcium.Ca_Pr">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_0" />
<dcterms:description>concentration of calcium-bound cytosolic proteins</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#mitochondrial_Ca_release.Ca_m">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_2" />
<dcterms:description>concentration of free calcium in the mitochondria</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#environment_time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="#ER_calcium.Ca_ER">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_16">
<semsim:physicalPropertyOf rdf:resource="#entity_3" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of free calcium in the endoplasmic reticulum</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#total_calcium.rho_ER">
<dcterms:description>volume ratio between the endoplasmic reticulum and cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#cytosolic_calcium.k_plus">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
<dcterms:description>on-rate constant for calcium binding to protein</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#ATP_dependent_Ca_uptake_into_the_ER.k_pump">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
<dcterms:description>rate constant of ATPase pumps</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#ER_calcium.J_pump">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_19">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00593" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>ATP-dependent calcium flux from the cytosol into the endoplasmic reticulum</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#Ca_efflux_from_the_ER.K1">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_1" />
<dcterms:description>calcium concentration for half-saturation of calcium channels in the endoplasmic reticulum membrane</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#total_calcium.rho_m">
<dcterms:description>volume ratio between the mitochondria and cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#total_protein.Pr">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_5">
<semsim:physicalPropertyOf rdf:resource="#entity_0" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of unbound cytosolic proteins</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#ER_calcium.J_pump">
<dcterms:description>ATP-dependent calcium flux from the cytosol into the endoplasmic reticulum</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#cytosolic_calcium_Ca_cyt">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_0" />
<dcterms:description>concentration of free cytosolic calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#ER_calcium.rho_ER">
<dcterms:description>volume ratio between the endoplasmic reticulum and cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#ER_calcium.J_ch">
<dcterms:description>calcium channel flux from the endoplasmic reticulum to the cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#cytosolic_calcium.k_minus">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
<dcterms:description>off-rate constant for calcium binding to protein</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#cytosolic_calcium.Pr">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_9">
<semsim:physicalPropertyOf rdf:resource="#entity_0" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of unbound cytosolic proteins</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#mitochondrial_Ca_release.Ca_cyt">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_37">
<semsim:physicalPropertyOf rdf:resource="#entity_2" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of free cytosolic calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#ATP_dependent_Ca_uptake_into_the_ER.Ca_cyt">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_0" />
<dcterms:description>concentration of free cytosolic calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#cytosolic_calcium.J_in">
<dcterms:description>calcium uptake flux into the mitochondria by uniporters</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#mitochondrial_Ca_uptake.Ca_cyt">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_34">
<semsim:physicalPropertyOf rdf:resource="#entity_2" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of free cytosolic calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#mitochondrial_Ca_release.K3">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_36">
<semsim:physicalPropertyOf rdf:resource="#entity_5" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>calcium concentration for half-saturation of sodium-calcium exchangers</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#total_protein.Pr_tot">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_0" />
<dcterms:description>concentration of total protein</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#mitochondrial_calcium.J_in">
<dcterms:description>calcium uptake flux into the mitochondria by uniporters</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#Ca_efflux_from_the_ER.k_ch">
<dcterms:description>maximal permeability of calcium channels in the endoplasmic reticulum membrane</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#mitochondrial_calcium.Ca_m">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_20">
<semsim:physicalPropertyOf rdf:resource="#entity_5" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of free calcium in the mitochondria</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#marhl_2000" bqmodel:isDescribedBy="11004387" />
<rdf:Description rdf:about="#mitochondrial_Ca_release.k_out">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
<dcterms:description>maximal rate constant for calcium flux through sodium-calcium exchangers</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#total_calcium_Ca_Pr">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_0">
<semsim:physicalPropertyOf rdf:resource="#entity_0" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>concentration of calcium-bound cytosolic proteins</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#mitochondrial_calcium.time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="#ER_calcium.time">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01023" />
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#ATP_dependent_Ca_uptake_into_the_ER_J_pump">
<dcterms:description>ATP-dependent calcium flux from the cytosol into the endoplasmic reticulum</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#mitochondrial_Ca_uptake.K2">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_3" />
<dcterms:description>calcium concentration for half-saturation of calcium uniporters in mitochondrial membrane</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#cytosolic_calcium.Pr">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_0" />
<dcterms:description>concentration of unbound cytosolic proteins</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#ER_calcium.rho_ER">
<dcterms:description>volume ratio between the endoplasmic reticulum and cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#Ca_efflux_from_the_ER.k_ch">
<dcterms:description>maximal permeability of calcium channels in the endoplasmic reticulum membrane</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#ATP_dependent_Ca_uptake_into_the_ER.k_pump">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
<dcterms:description>rate constant of ATPase pumps</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#ER_calcium.beta_ER">
<dcterms:description>fraction of free endoplasmic reticulum calcium concentration to total cellular calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#marhl_2000" semsim:modelName="marhl_haberichter_brumen_heinrich_2000" bqmodel:isDescribedBy="11004387">
<semsim:unknown>A mathematical model of Ca2+ oscillations and the role of mitochondria
and cytosolic proteins.</semsim:unknown>
<semsim:modelName>marhl_2000</semsim:modelName>
</rdf:Description>
<rdf:Description rdf:about="#total_calcium.beta_m">
<dcterms:description>fraction of free mitochondrial calcium concentration to total cellular calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#Ca_efflux_from_the_ER.K1">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_26">
<semsim:physicalPropertyOf rdf:resource="#entity_3" />
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00340" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>calcium concentration for half-saturation of calcium channels in the endoplasmic reticulum membrane</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#total_calcium.rho_ER">
<dcterms:description>volume ratio between the endoplasmic reticulum and cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#mitochondrial_Ca_uptake.Ca_cyt">
<bqbiol:isPropertyOf rdf:resource="marhl_haberichter_brumen_heinrich_2000.cellml#entity_0" />
<dcterms:description>concentration of free cytosolic calcium</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#cytosolic_calcium.J_ch">
<dcterms:description>calcium channel flux from the endoplasmic reticulum to the cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="#mitochondrial_calcium.J_in">
<semsim:isComputationalComponentFor>
<rdf:Description rdf:about="#property_21">
<semsim:hasPhysicalDefinition rdf:resource="https://identifiers.org/opb/OPB_00593" />
</rdf:Description>
</semsim:isComputationalComponentFor>
<dcterms:description>calcium uptake flux into the mitochondria by uniporters</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#mitochondrial_Ca_release.k_m">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
<dcterms:description>rate constant for non-specific leak flux</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#mitochondrial_Ca_release.k_out">
<bqbiol:is rdf:resource="https://identifiers.org/opb/OPB_01296" />
<dcterms:description>maximal rate constant for calcium flux through sodium-calcium exchangers</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#mitochondrial_calcium.rho_m">
<dcterms:description>volume ratio between the mitochondria and cytosol</dcterms:description>
</rdf:Description>
<rdf:Description rdf:about="marhl_haberichter_brumen_heinrich_2000.cellml#total_calcium.Ca_tot">
<dcterms:description>concentration of total cellular calcium</dcterms:description>
</rdf:Description>
</rdf:RDF>
</model>
