Location: Cooling, Hunter, Crampin, Cellml, 2008 @ f297f440b999 / GPCR_Cycle.cellML

Author:
Mike Cooling <m.cooling@auckland.ac.nz>
Date:
2010-03-03 16:41:47+13:00
Desc:
Added PMR2 Keywords to the metadata, also citation information.
Permanent Source URI:
http://models.cellml.org/workspace/cooling_hunter_crampin_CellML_2008/rawfile/f297f440b9992c26d0b47db50d1db67342ea3589/GPCR_Cycle.cellML

<?xml version="1.0" encoding="iso-8859-1"?>
<model
    name="GPCR_Cycle"
    cmeta:id="GPCR_Cycle"
    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#">
    
<rdf:RDF
    xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
    xmlns:cmeta="http://www.cellml.org/metadata/1.0#"
    xmlns:bqs="http://www.cellml.org/bqs/1.0#"
    xmlns:dc="http://purl.org/dc/elements/1.1/"
    xmlns:dcterms="http://purl.org/dc/terms/"
    xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
    <rdf:Description rdf:about="#GPCR_Cycle">
        <dc:creator rdf:parseType="Resource">
            <vCard:N rdf:parseType="Resource">
                <vCard:Family>Cooling</vCard:Family>
                <vCard:Given>Michael</vCard:Given>
            </vCard:N>
            <vCard:EMAIL rdf:parseType="Resource">
                <rdf:value>m.cooling@auckland.ac.nz</rdf:value>
                <rdf:type rdf:resource="http://imc.org/vCard/3.0#internet" />
            </vCard:EMAIL>
        </dc:creator>

        <dc:title>Cooling's GPCR_Cycle Module</dc:title>
    </rdf:Description>
</rdf:RDF> 
<!--
*******************************************************
***         U   N   I   T   S                       ***
*******************************************************
--> 
<units name="s">
    <unit units="second" />
</units>

<units name="uM">
    <unit prefix="micro" units="mole" />
    <unit units="liter" exponent="-1" />
</units>

<units name="um2">
    <unit prefix="micro" units="meter" exponent="2" />
</units>

<units name="per_um2">
    <unit units="um2" exponent="-1" />
</units>

<units name="per_um2_per_s">
    <unit units="um2" exponent="-1" />
    <unit units="s" exponent="-1" />
</units>

<units name="per_s">
    <unit units="s" exponent="-1" />
</units> 

<units name="per_uM_per_s">
    <unit units="uM" exponent="-1"/>
    <unit units="s" exponent="-1" />
</units>

<units name="um2_per_s">
    <unit units="um2" />
    <unit units="s" exponent="-1" />
</units>
<!--
********************************************************
***    C   O   M   P   O   N   E   N   T   S         ***
********************************************************
-->
<component name="GPCR_Cycle">

    <variable name="t"  private_interface="in" units="s" />
    <variable name="L" units="uM" public_interface="in" />
    <variable name="Gd" units="per_um2" public_interface="in" />  
    <variable name="J2" units="per_um2_per_s" public_interface="out"/>
    <variable name="J3" units="per_um2_per_s" public_interface="out"/>
    <variable name="J6" units="per_um2_per_s" public_interface="out"/>
    <variable name="J1" units="per_um2_per_s" />
    <variable name="kf1" initial_value="0.0003" units="per_uM_per_s" />
    <variable name="kr1" units="per_s" />             
    <variable name="Kd1" initial_value="3.00E-5" units="uM" /> 
    <variable name="kf2" initial_value="2.75E-4" units="um2_per_s" />
    <variable name="kr2" units="per_s" />
    <variable name="Kd2" initial_value="27500" units="per_um2" />
    <variable name="kf3" initial_value="1.00" units="um2_per_s" />
    <variable name="kr3" initial_value="0.00100" units="per_s" />
    <variable name="J4" units="per_um2_per_s" />
    <variable name="kf4" initial_value="0.3" units="per_uM_per_s" />
    <variable name="kr4" units="per_s" />
    <variable name="Kd4" initial_value="3.00E-5" units="uM" />
    <variable name="J5" units="per_um2_per_s" />
    <variable name="kf5" initial_value="0.0004" units="per_s" />
    <variable name="kf6" initial_value="1.00" units="per_s" />
    <variable name="R" initial_value="13.9" units="per_um2" />
    <variable name="Rl" initial_value="0.00" units="per_um2" />
    <variable name="Rg"  initial_value="5.06" units="per_um2" />
    <variable name="Rlg" initial_value="0.00" units="per_um2" />
    <variable name="Rlgp" initial_value="0.00" units="per_um2" />

    <math xmlns="http://www.w3.org/1998/Math/MathML"
        cmeta:id="kr1_eq">
        <apply id="kr1_eq">
            <eq/> />
            <ci>kr1</ci>
            <apply>
                <times />
                <ci>kf1</ci>
                <ci>Kd1</ci>
            </apply>
        </apply>
    </math>

    <math xmlns="http://www.w3.org/1998/Math/MathML"
        cmeta:id="J1_eq">
        <apply id="J1_eq">
            <eq/> />
            <ci>J1</ci>
            <apply>
                <minus />
                <apply>
                    <times />
                    <ci>kf1</ci>
                    <ci>R</ci>
                    <ci>L</ci>
                </apply>
                <apply>
                    <times />
                    <ci>kr1</ci>
                    <ci>Rl</ci>
                </apply>
            </apply>
        </apply>
    </math>

    <math xmlns="http://www.w3.org/1998/Math/MathML"
        cmeta:id="kr2_eq">
        <apply id="kr2_eq">
            <eq/> 
            <ci>kr2</ci>
            <apply>
                <times />
                <ci>kf2</ci>
                <ci>Kd2</ci>
            </apply>
        </apply>
    </math>  

    <math xmlns="http://www.w3.org/1998/Math/MathML"
        cmeta:id="J2_eq">
        <apply id="J2_eq">
            <eq/> />
            <ci>J2</ci>
            <apply>
                <minus />
                <apply>
                    <times />
                    <ci>kf2</ci>
                    <ci>R</ci>
                    <ci>Gd</ci>
                </apply>
                <apply>
                    <times />
                    <ci>kr2</ci>
                    <ci>Rg</ci>
                </apply>
            </apply>
        </apply>
    </math>

    <math xmlns="http://www.w3.org/1998/Math/MathML"
        cmeta:id="dR_dt_eq">
        <apply id="dR_dt_eq">
            <eq/> 
            <apply>
                <diff/>
                <bvar>
                    <ci>t</ci>
                </bvar>
                <ci>R</ci>
            </apply>
            <apply>
                <minus />
                <apply>
                    <times />
                    <cn cellml:units="dimensionless">-1.0</cn> 
                    <ci>J1</ci>
                </apply>
                <ci>J2</ci>
            </apply>
        </apply>
    </math>  

    <math xmlns="http://www.w3.org/1998/Math/MathML"
        cmeta:id="J3_eq">
        <apply id="J3_eq">
            <eq/> 
            <ci>J3</ci>
            <apply>
                <minus />
                <apply>
                    <times />
                    <ci>kf3</ci>
                    <ci>Rl</ci>
                    <ci>Gd</ci>
                </apply>
                <apply>
                    <times />
                    <ci>kr3</ci>
                    <ci>Rlg</ci>
                </apply>
            </apply>
        </apply>
    </math>

    <math xmlns="http://www.w3.org/1998/Math/MathML"
        cmeta:id="dRl_dt_eq">
        <apply id="dRl_dt_eq">
            <eq/> 
            <apply>
                <diff/>
                <bvar>
                    <ci>t</ci>
                </bvar>
                <ci>Rl</ci>
            </apply>
            <apply>
                <minus />
                <apply>
                    <plus />
                    <ci>J1</ci>
                    <ci>J6</ci>
                </apply>
                <ci>J3</ci>
            </apply>
        </apply>
    </math>  

    <math xmlns="http://www.w3.org/1998/Math/MathML"
        cmeta:id="kr4_eq">
        <apply id="kr4_eq">
            <eq/> 
            <ci>kr4</ci>
            <apply>
                <times />
                <ci>kf4</ci>
                <ci>Kd4</ci>
            </apply>
        </apply>
    </math>  

    <math xmlns="http://www.w3.org/1998/Math/MathML"
        cmeta:id="J4_eq">
        <apply id="J4_eq">
            <eq/> />
            <ci>J4</ci>
            <apply>
                <minus />
                <apply>
                    <times />
                    <ci>kf4</ci>
                    <ci>L</ci>
                    <ci>Rg</ci>
                </apply>
                <apply>
                    <times />
                    <ci>kr4</ci>
                    <ci>Rlg</ci>
                </apply>
            </apply>
        </apply>
    </math>

    <math xmlns="http://www.w3.org/1998/Math/MathML"
        cmeta:id="dRg_dt_eq">
        <apply id="dRg_dt_eq">
            <eq/> 
            <apply>
                <diff/>
                <bvar>
                    <ci>t</ci>
                </bvar>
                <ci>Rg</ci>
            </apply>
            <apply>
                <minus />
                <ci>J2</ci>
                <ci>J4</ci>
            </apply>
        </apply>
    </math> 

    <math xmlns="http://www.w3.org/1998/Math/MathML"
        cmeta:id="J5_eq">
        <apply id="J5_eq">
            <eq/> 
            <ci>J5</ci>
            <apply>
                <times />
                <ci>kf5</ci>
                <ci>Rlg</ci>
            </apply>
        </apply>
    </math>

    <math xmlns="http://www.w3.org/1998/Math/MathML"
        cmeta:id="dRlgp_dt_eq">
        <apply id="dRlgp_dt_eq">
            <eq/> 
            <apply>
                <diff/>
                <bvar>
                    <ci>t</ci>
                </bvar>
                <ci>Rlgp</ci>
            </apply>
            <ci>J5</ci>
        </apply>
    </math>  

    <math xmlns="http://www.w3.org/1998/Math/MathML"
        cmeta:id="J6_eq">
        <apply id="J6_eq">
            <eq/> 
            <ci>J6</ci>
            <apply>
                <times />
                <ci>kf6</ci>
                <ci>Rlg</ci>
            </apply>
        </apply>
    </math>

    <math xmlns="http://www.w3.org/1998/Math/MathML"
        cmeta:id="dRlg_dt_eq">
        <apply id="dRlg_dt_eq">
            <eq/> 
            <apply>
                <diff/>
                <bvar>
                    <ci>t</ci>
                </bvar>
                <ci>Rlg</ci>
            </apply>
            <apply>
                <plus/>
                <apply>
                    <minus />           
                    <ci>J3</ci>
                    <ci>J5</ci>
                </apply>
                <apply>
                    <minus />
                    <ci>J4</ci>
                    <ci>J6</ci>
                </apply>
            </apply>
        </apply>
    </math> 
</component>

</model>