Location: BondGraph Basic @ 994dbbb88a76 / BG Tutorial Biochemical Systems / Biochemical 1.cellml

Author:

Soroush <ssaf006@aucklanduni.ac.nz>

Date:

2021-04-08 15:18:19+12:00

Desc:

modified svg

Permanent Source URI:

https://models.fieldml.org/workspace/43b/rawfile/994dbbb88a761fe3a62bfaf8352da94103650bb2/BG Tutorial Biochemical Systems/Biochemical 1.cellml

<?xml version='1.0'?>
<model name="Biochemical1" xmlns="http://www.cellml.org/cellml/1.1#" xmlns:cellml="http://www.cellml.org/cellml/1.1#" xmlns:xlink="http://www.w3.org/1999/xlink">
    <import xlink:href="Units.cellml">
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        <units name="J_per_mol" units_ref="J_per_mol"/>
        <units name="J_per_mol_K" units_ref="J_per_mol_K"/>
        <units name="mol_per_s" units_ref="mol_per_s"/>
    </import>
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        <!-- Parameters-->
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        <variable initial_value="300" name="T" units="kelvin"/>
        <variable initial_value="50.0" name="K_q1" units="per_mol"/>
        <variable initial_value="35.0" name="K_q2" units="per_mol"/>
        <variable initial_value="20.0" name="K_q3" units="per_mol"/>
        <variable initial_value="20.0" name="K_q4" units="per_mol"/>
        <variable initial_value="0.0001" name="K_Re1" units="mol_per_s"/>
        <!-- State variables-->
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        <variable initial_value="10" name="q2" units="mole"/>
        <variable initial_value="1e-6" name="q3" units="mole"/>
        <variable initial_value="1e-6" name="q4" units="mole"/>
        <variable name="v1" units="mol_per_s"/>
        <variable name="u1" units="J_per_mol"/>
        <variable name="u2" units="J_per_mol"/>
        <variable name="u3" units="J_per_mol"/>
        <variable name="u4" units="J_per_mol"/>
        <variable name="u5" units="J_per_mol"/>
        <variable name="u6" units="J_per_mol"/>
        <!-- Conservation laws-->
        <math xmlns="http://www.w3.org/1998/Math/MathML">
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                    <diff/>
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                        <ci>t</ci>
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            <apply>
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                <ci>u6</ci>
                <apply>
                    <plus/>
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                <ci>u1</ci>
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                    <times/>
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                    <ci>T</ci>
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                            <times/>
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                            <ci>q1</ci>
                        </apply>
                    </apply>
                </apply>
            </apply>
            <apply>
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                            <times/>
                            <ci>K_q2</ci>
                            <ci>q2</ci>
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                            <ci>q3</ci>
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                    </apply>
                </apply>
            </apply>
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                            <ci>q4</ci>
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            </apply>
            <apply>
                <eq/>
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                <apply>
                    <times/>
                    <ci>K_Re1</ci>
                    <apply>
                        <minus/>
                        <apply>
                            <exp/>
                            <apply>
                                <divide/>
                                <ci>u5</ci>
                                <apply>
                                    <times/>
                                    <ci>R</ci>
                                    <ci>T</ci>
                                </apply>
                            </apply>
                        </apply>
                        <apply>
                            <exp/>
                            <apply>
                                <divide/>
                                <ci>u6</ci>
                                <apply>
                                    <times/>
                                    <ci>R</ci>
                                    <ci>T</ci>
                                </apply>
                            </apply>
                        </apply>
                    </apply>
                </apply>
            </apply>
        </math>
    </component>
</model>