Location: semantic-annotation @ dcab0d9157ad / SEDML / weinstein_1995 / REST / Weinstein_1995_NHE3_Fig2.cellml

Author:
Dewan Sarwar <sarwarcse@gmail.com>
Date:
2019-03-11 12:09:49+13:00
Desc:
added blood capillary flux model
Permanent Source URI:
https://models.physiomeproject.org/workspace/584/rawfile/dcab0d9157ad4fb602c5084666c323fb3e30323a/SEDML/weinstein_1995/REST/Weinstein_1995_NHE3_Fig2.cellml
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<?xml version='1.0'?>
<model cmeta:id="Weinstein_1995_NHE3" name="Weinstein_1995_NHE3" xmlns="http://www.cellml.org/cellml/1.1#" xmlns:cellml="http://www.cellml.org/cellml/1.1#" xmlns:cmeta="http://www.cellml.org/metadata/1.0#" xmlns:xlink="http://www.w3.org/1999/xlink">
    <import xlink:href="Units/Units.cellml">
        <units name="mM" units_ref="mM"/>
        <units name="per_s" units_ref="per_s"/>
        <units name="mM_per_s" units_ref="mM_per_s"/>
    </import>
    <import xlink:href="Weinstein_1995_NHE3.cellml">
        <component component_ref="NHE3" name="NHE3"/>
    </import>
    <component name="environment">
        <variable name="time" public_interface="out" units="second"/>
    </component>
    <component name="concentrations">
        <variable initial_value="0.1" name="Na_ext" public_interface="out" units="mM"/>
        <variable initial_value="0.0" name="Na_int" public_interface="out" units="mM"/>
        <variable name="H_ext" public_interface="out" units="mM"/>
        <variable initial_value="1.0e-3" name="H_int" public_interface="out" units="mM"/>
        <variable initial_value="0.0" name="NH4_ext" public_interface="out" units="mM"/>
        <variable initial_value="0.0" name="NH4_int" public_interface="out" units="mM"/>
        <variable name="time" public_interface="in" units="second"/>
        <variable initial_value="6" name="pH_ext" units="dimensionless"/>
        <math xmlns="http://www.w3.org/1998/Math/MathML">
            <apply>
                <eq/>
                <apply>
                    <diff/>
                    <bvar>
                        <ci>time</ci>
                    </bvar>
                    <ci>pH_ext</ci>
                </apply>
                <cn cellml:units="per_s">2</cn>
            </apply>
            <apply>
                <eq/>
                <ci>H_ext</ci>
                <apply>
                    <times/>
                    <cn cellml:units="mM">1e3</cn>
                    <apply>
                        <power/>
                        <cn cellml:units="dimensionless">10</cn>
                        <apply>
                            <minus/>
                            <ci>pH_ext</ci>
                        </apply>
                    </apply>
                </apply>
            </apply>
        </math>
    </component>
    <component name="fluxes">
        <variable name="J_NHE3_Na" public_interface="in" units="mM_per_s"/>
        <variable name="J_NHE3_H" public_interface="in" units="mM_per_s"/>
        <variable name="J_NHE3_NH4" public_interface="in" units="mM_per_s"/>
        <variable name="J_NHE3_Na_Max" public_interface="in" units="mM_per_s"/>
        <variable name="plot_a" units="dimensionless"/>
        <variable name="plot_b" units="dimensionless"/>
        <math xmlns="http://www.w3.org/1998/Math/MathML">
            <apply>
                <eq/>
                <ci>plot_a</ci>
                <apply>
                    <divide/>
                    <apply>
                        <minus/>
                        <ci>J_NHE3_Na</ci>
                    </apply>
                    <ci>J_NHE3_Na_Max</ci>
                </apply>
            </apply>
            <apply>
                <eq/>
                <ci>plot_b</ci>
                <apply>
                    <divide/>
                    <cn cellml:units="dimensionless">1</cn>
                    <ci>plot_a</ci>
                </apply>
            </apply>
        </math>
    </component>
    <connection>
        <map_components component_1="concentrations" component_2="NHE3"/>
        <map_variables variable_1="Na_ext" variable_2="Na_ext"/>
        <map_variables variable_1="Na_int" variable_2="Na_int"/>
        <map_variables variable_1="H_ext" variable_2="H_ext"/>
        <map_variables variable_1="H_int" variable_2="H_int"/>
        <map_variables variable_1="NH4_ext" variable_2="NH4_ext"/>
        <map_variables variable_1="NH4_int" variable_2="NH4_int"/>
    </connection>
    <connection>
        <map_components component_1="fluxes" component_2="NHE3"/>
        <map_variables variable_1="J_NHE3_Na" variable_2="J_NHE3_Na"/>
        <map_variables variable_1="J_NHE3_H" variable_2="J_NHE3_H"/>
        <map_variables variable_1="J_NHE3_NH4" variable_2="J_NHE3_NH4"/>
        <map_variables variable_1="J_NHE3_Na_Max" variable_2="J_NHE3_Na_Max"/>
    </connection>
    <connection>
        <map_components component_1="concentrations" component_2="environment"/>
        <map_variables variable_1="time" variable_2="time"/>
    </connection>
    <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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                    <vCard:Family xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">Terkildsen</vCard:Family>
                    <vCard:Given xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">Jonna</vCard:Given>
                </vCard:N>
                <vCard:EMAIL xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
                    <rdf:value xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">j.terkildsen@auckland.ac.nz</rdf:value>
                    <rdf:type xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:resource="http://imc.org/vCard/3.0#internet"/>
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                <vCard:ORG xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
                    <vCard:Orgname xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">Auckland Bioengineering Institute</vCard:Orgname>
                </vCard:ORG>
            </dc:creator>
            <dcterms:created xmlns:dcterms="http://purl.org/dc/terms/" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
                <dcterms:W3CDTF xmlns:dcterms="http://purl.org/dc/terms/">2009-05-27</dcterms:W3CDTF>
            </dcterms:created>
        </rdf:Description>
        <rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="#weinstein_1995">
            <bqs:reference xmlns:bqs="http://www.cellml.org/bqs/1.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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                    <bqs:subject_type xmlns:bqs="http://www.cellml.org/bqs/1.0#">keyword</bqs:subject_type>
                    <rdf:value xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
                        <rdf:Bag xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
                            <rdf:li xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">Na/H antiporter</rdf:li>
                            <rdf:li xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">ion transport</rdf:li>
                            <rdf:li xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">kidney</rdf:li>
                            <rdf:li xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">proximal tubule</rdf:li>
                            <rdf:li xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">renal</rdf:li>
                        </rdf:Bag>
                    </rdf:value>
                </dc:subject>
            </bqs:reference>
            <bqs:reference xmlns:bqs="http://www.cellml.org/bqs/1.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
                <bqs:Pubmed_id xmlns:bqs="http://www.cellml.org/bqs/1.0#">7658195</bqs:Pubmed_id>
                <bqs:JournalArticle xmlns:bqs="http://www.cellml.org/bqs/1.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
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                                    <vCard:N xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
                                        <vCard:Family xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">Weinstein</vCard:Family>
                                        <vCard:Given xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">A</vCard:Given>
                                        <vCard:Other xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">M</vCard:Other>
                                    </vCard:N>
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                            </rdf:li>
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                    </dc:creator>
                    <dc:title xmlns:dc="http://purl.org/dc/elements/1.1/">&#xd;
           A kinetically defined Na+/H+ antiporter within a mathematical model of the rat proximal tubule&#xd;
          </dc:title>
                    <bqs:Journal xmlns:bqs="http://www.cellml.org/bqs/1.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
                        <dc:title xmlns:dc="http://purl.org/dc/elements/1.1/">The Journal of General Physiology</dc:title>
                    </bqs:Journal>
                    <bqs:volume xmlns:bqs="http://www.cellml.org/bqs/1.0#">105</bqs:volume>
                    <bqs:first_page xmlns:bqs="http://www.cellml.org/bqs/1.0#">617</bqs:first_page>
                    <bqs:last_page xmlns:bqs="http://www.cellml.org/bqs/1.0#">641</bqs:last_page>
                </bqs:JournalArticle>
            </bqs:reference>
        </rdf:Description>
    </rdf:RDF>
</model>