Location: Modeling the Recruitment and Synchronization of SMCs (Koenigsberger et al. 2004) @ eb9b6ae06871 / Components / buildsrc / SMC_KCl_noise.txt

Author:

WeiweiAi <wai484@aucklanduni.ac.nz>

Date:

2022-06-15 11:08:09+12:00

Desc:

Include simFig3

Permanent Source URI:

https://models.cellml.org/workspace/874/rawfile/eb9b6ae068716f451953bd5900bcfdaa5761b0cf/Components/buildsrc/SMC_KCl_noise.txt

def model SMC_KCl_noise as
    def import using "../cellLib/Components/units.cellml" for
        unit mM using unit mM;
        unit mV using unit mV;
        unit uM using unit uM;
        unit uM_per_s using unit uM_per_s;
        unit uM_per_s_mV using unit uM_per_s_mV;
    enddef;

    def import using "../Components/SMC.cellml" for
        comp SMC using comp SMC;
    enddef;

    def import using "../Components/Para.cellml" for
        comp Para using comp Para;
    enddef;

    def import using "../cellLib/Protocols/X_clamp_protocol.cellml" for
        comp X_clamp_protocol using comp X_clamp_protocol;
    enddef;

    def import using "../cellLib/Components/time.cellml" for
        comp time using comp time_s;
    enddef;

    def comp output as
        var v_i: mV {pub: in};
        var s_i: uM {pub: in};
        var c_i: uM {pub: in};
        var w_i: dimensionless {pub: in};
        var I_i: uM {pub: in};
        var t: second {pub: in};
    enddef;

    def comp clamp_para as
        var t_ss: second {init: 0, pub: out};
        var X_Holding: mM {init: 5, pub: out};
        var t_act: second {init: 150, pub: out};
        var X_Test: mM {init: 5, pub: out};
        var X: mM {pub: in};
        var KCl: mM {pub: out};
        var Clo: mM {pub: out};

        KCl=X;
        Clo=147{mM}+KCl;

    enddef;

    def comp free_para as
        var E: uM_per_s {init: 0, pub: out};
        var J_PLCagonisti: uM_per_s {init: 0.067, pub: out};
    enddef;

    def comp noise_G as
        var G_Ca: uM_per_s_mV {init: 0.00129, pub: out};
        var G_NCX: uM_per_s_mV {init: 0.00316, pub: out};
        var G_Cl: uM_per_s_mV {init: 0.00134, pub: out};
        var G_Ki: uM_per_s_mV {init: 0.00446, pub: out};
    enddef;

    def map between SMC and output for
        vars v_i and v_i;
        vars s_i and s_i;
        vars c_i and c_i;
        vars w_i and w_i;
        vars I_i and I_i;
    enddef;

    def map between SMC and clamp_para for
        vars Ko and KCl;
        vars Clo and Clo;
    enddef;

    def map between SMC and free_para for
        vars E and E;
        vars J_PLCagonisti and J_PLCagonisti;
    enddef;

    def map between SMC and noise_G for
        vars G_Ki and G_Ki;
        vars G_Cl and G_Cl;
        vars G_NCX and G_NCX;
        vars G_Ca and G_Ca;
    enddef;

    def map between SMC and Para for
        vars gamma and gamma;
        vars vi_init and vi_init;
        vars ci_init and ci_init;
        vars si_init and si_init;
        vars Ii_init and Ii_init;
        vars F_IP3 and F_IP3;
        vars K_r and K_r;
        vars k and k;
        vars K_Ca and K_Ca;
        vars wi_init and wi_init;
        vars lambda and lambda;
        vars c_w and c_w;
        vars v_Ca3 and v_Ca3;
        vars R_K and R_K;
        vars beta and beta;
        vars Ki and Ki;
        vars R and R;
        vars F and F;
        vars T and T;
        vars Cli and Cli;
        vars F_NKA and F_NKA;
        vars L and L;
        vars D and D;
        vars v_d and v_d;
        vars R_d and R_d;
        vars C and C;
        vars s_c and s_c;
        vars c_c and c_c;
        vars B and B;
        vars c_b and c_b;
        vars v_NCX and v_NCX;
        vars c_NCX and c_NCX;
        vars v_Ca1 and v_Ca1;
        vars v_Ca2 and v_Ca2;
        vars R_Ca and R_Ca;
    enddef;

    def map between SMC and time for
        vars t and time;
    enddef;

    def map between output and time for
        vars t and time;
    enddef;

    def map between clamp_para and X_clamp_protocol for
        vars t_ss and t_ss;
        vars X_Holding and X_Holding;
        vars t_act and t_act;
        vars X_Test and X_Test;
        vars X and X;
    enddef;

    def map between X_clamp_protocol and time for
        vars time and time;
    enddef;

enddef;