Location: SLC transporters @ cc67d4f5117e / Facilitated transporter / params_BG_fit_ss_oi.cellml

Author:
Weiwei Ai <wai484@aucklanduni.ac.nz>
Date:
2024-04-06 11:32:22+13:00
Desc:
correct the units; Add the model with the parameters converted from kinetic models
Permanent Source URI:
http://models.cellml.org/workspace/b65/rawfile/cc67d4f5117e49e550b0fed51e40854609d05eae/Facilitated transporter/params_BG_fit_ss_oi.cellml

<?xml version='1.0' encoding='UTF-8'?>
<model name="params_BG" 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">
        <units name="fmol_per_s" units_ref="fmol_per_s"/>
        <units name="J_per_K_mol" units_ref="J_per_K_mol"/>
        <units name="per_fmol" units_ref="per_fmol"/>
        <units name="fmol" units_ref="fmol"/>
        <units name="per_s" units_ref="per_s"/>
        <units name="pL" units_ref="pL"/>
        <units name="uM" units_ref="uM"/>
        <units name="mM" units_ref="mM"/>
        <units name="mM_per_s" units_ref="mM_per_s"/>
    </import>
    <units name="per_fmol_s">
        <unit exponent="-1" units="fmol"/>
        <unit units="per_s"/>
    </units>
    <units name="per_s_mM">
        <unit exponent="-1" units="mM"/>
        <unit units="per_s"/>
    </units>
    <units name="amol">
        <unit prefix="atto" units="mole"/>
    </units>
    <component name="params_BG">
        <variable name="t" public_interface="out" units="second"/>
        <variable initial_value="8.31" name="R" public_interface="out" units="J_per_K_mol"/>
        <variable initial_value="273.15" name="T" public_interface="out" units="kelvin"/>
        <variable name="K_Ai" public_interface="out" units="per_fmol"/>
        <variable name="q_init_Ai" public_interface="out" units="fmol"/>
        <variable name="K_Ao" public_interface="out" units="per_fmol"/>
        <variable name="q_init_Ao" public_interface="out" units="fmol"/>
        <variable initial_value="1e-6" name="K_1" public_interface="out" units="per_fmol"/>
        <variable initial_value="0.1501" name="q_init_1" public_interface="out" units="fmol"/>
        <variable name="K_2" public_interface="out" units="per_fmol"/>
        <variable initial_value="0.1501" name="q_init_2" public_interface="out" units="fmol"/>
        <variable initial_value="1e-5" name="K_3" public_interface="out" units="per_fmol"/>
        <variable initial_value="0.1501" name="q_init_3" public_interface="out" units="fmol"/>
        <variable name="K_4" public_interface="out" units="per_fmol"/>
        <variable initial_value="0.1501" name="q_init_4" public_interface="out" units="fmol"/>
        <variable name="kappa_r1" public_interface="out" units="fmol_per_s"/>
        <variable name="kappa_r2" public_interface="out" units="fmol_per_s"/>
        <variable name="kappa_r3" public_interface="out" units="fmol_per_s"/>
        <variable name="kappa_r4" public_interface="out" units="fmol_per_s"/>
        <variable initial_value="1113" name="c" units="per_s"/>
        <variable initial_value="90.3" name="d" units="per_s"/>
        <variable initial_value="12.1" name="g" units="per_s"/>
        <variable initial_value="0.726" name="h" units="per_s"/>
        <variable initial_value="500" name="a" units="per_s_mM"/>
        <variable name="b" units="per_s"/>
        <variable name="E" public_interface="out" units="fmol"/>
        <!-- GC: the concentrationof glucose carrier molecules-->
        <variable initial_value="6.67" name="GC" units="uM"/>
        <variable initial_value="90" name="V_i" units="pL"/>
        <!-- the intracelluar glucose concentration-->
        <variable initial_value="0" name="g_i" units="mM"/>
        <!-- the intracelluar glucose concentration-->
        <variable initial_value="1e-8" name="g_o" units="mM"/>
        <variable initial_value="90" name="V_o" public_interface="out" units="pL"/>
        <math xmlns="http://www.w3.org/1998/Math/MathML">
            <apply>
                <eq/>
                <ci>K_2</ci>
                <apply>
                    <divide/>
                    <apply>
                        <times/>
                        <ci>K_3</ci>
                        <ci>c</ci>
                    </apply>
                    <ci>d</ci>
                </apply>
            </apply>
            <apply>
                <eq/>
                <ci>K_4</ci>
                <apply>
                    <divide/>
                    <apply>
                        <times/>
                        <ci>K_1</ci>
                        <ci>h</ci>
                    </apply>
                    <ci>g</ci>
                </apply>
            </apply>
            <apply>
                <eq/>
                <ci>K_Ao</ci>
                <apply>
                    <divide/>
                    <apply>
                        <times/>
                        <apply>
                            <divide/>
                            <ci>K_2</ci>
                            <apply>
                                <times/>
                                <ci>K_1</ci>
                                <ci>V_o</ci>
                            </apply>
                        </apply>
                        <ci>a</ci>
                    </apply>
                    <ci>b</ci>
                </apply>
            </apply>
            <apply>
                <eq/>
                <ci>b</ci>
                <apply>
                    <times/>
                    <cn cellml:units="mM">9.5</cn>
                    <ci>a</ci>
                </apply>
            </apply>
            <apply>
                <eq/>
                <ci>K_Ai</ci>
                <ci>K_Ao</ci>
            </apply>
            <apply>
                <eq/>
                <ci>kappa_r1</ci>
                <apply>
                    <divide/>
                    <ci>h</ci>
                    <ci>K_4</ci>
                </apply>
            </apply>
            <apply>
                <eq/>
                <ci>kappa_r2</ci>
                <apply>
                    <divide/>
                    <ci>c</ci>
                    <ci>K_2</ci>
                </apply>
            </apply>
            <apply>
                <eq/>
                <ci>kappa_r3</ci>
                <apply>
                    <divide/>
                    <ci>b</ci>
                    <ci>K_2</ci>
                </apply>
            </apply>
            <apply>
                <eq/>
                <ci>kappa_r4</ci>
                <apply>
                    <times/>
                    <cn cellml:units="dimensionless">1</cn>
                    <ci>kappa_r3</ci>
                </apply>
            </apply>
            <apply>
                <eq/>
                <ci>E</ci>
                <apply>
                    <divide/>
                    <apply>
                        <times/>
                        <ci>GC</ci>
                        <ci>V_i</ci>
                        <cn cellml:units="fmol">1</cn>
                    </apply>
                    <cn cellml:units="amol">1000</cn>
                </apply>
            </apply>
            <apply>
                <eq/>
                <ci>q_init_Ao</ci>
                <apply>
                    <times/>
                    <ci>g_o</ci>
                    <ci>V_o</ci>
                </apply>
            </apply>
            <apply>
                <eq/>
                <ci>q_init_Ai</ci>
                <apply>
                    <times/>
                    <ci>g_i</ci>
                    <ci>V_i</ci>
                </apply>
            </apply>
            <apply>
                <eq/>
                <apply>
                    <diff/>
                    <bvar>
                        <ci>t</ci>
                    </bvar>
                    <ci>g_o</ci>
                </apply>
                <cn cellml:units="mM_per_s">1</cn>
            </apply>
        </math>
        <!--    q_init_3 = E/4{dimensionless};
    q_init_4 = E/4{dimensionless};
    q_init_5 = E/4{dimensionless};
    q_init_6 = E/4{dimensionless};-->
    </component>
</model>