- Author:
- WeiweiAi <wai484@aucklanduni.ac.nz>
- Date:
- 2022-04-14 19:02:38+12:00
- Desc:
- update Lib;
add models
- Permanent Source URI:
- https://staging.physiomeproject.org/workspace/83f/rawfile/4d9f1500c38c05427831e95e102c318d45f89d4c/Components/PASMC.txt
def model PASMC as
def import using "../cellLib/Components/units.cellml" for
unit mM using unit mM;
unit mV using unit mV;
unit mV_per_uM using unit mV_per_uM;
unit per_s using unit per_s;
unit uM using unit uM;
unit uM2 using unit uM2;
unit uM_per_s using unit uM_per_s;
unit uM_per_s_mV using unit uM_per_s_mV;
enddef;
def import using "JCICRi.cellml" for
comp JCICRi using comp JCICRi;
enddef;
def import using "JCli.cellml" for
comp JCli using comp JCli;
enddef;
def import using "JKi.cellml" for
comp JKi using comp JKi;
enddef;
def import using "JNCXi.cellml" for
comp JNCXi using comp JNCXi;
enddef;
def import using "JNKA.cellml" for
comp JNKA using comp JNKA;
enddef;
def import using "JPMCAi.cellml" for
comp JPMCAi using comp JPMCAi;
enddef;
def import using "JSERCAi.cellml" for
comp JSERCAi using comp JSERCAi;
enddef;
def import using "JVOCCi.cellml" for
comp JVOCCi using comp JVOCCi;
enddef;
def import using "Jleaki.cellml" for
comp Jleaki using comp Jleaki;
enddef;
def comp Cai as
var L: per_s {pub: in, priv: out};
var D: per_s {pub: in, priv: out};
var v_d: mV {pub: in, priv: out};
var R_d: mV {pub: in, priv: out};
var C: uM_per_s {pub: in, priv: out};
var s_c: uM {pub: in, priv: out};
var c_c: uM {pub: in, priv: out};
var B: uM_per_s {pub: in, priv: out};
var c_b: uM {pub: in, priv: out};
var G_NCX: uM_per_s_mV {pub: in, priv: out};
var v_NCX: mV {pub: in, priv: out};
var c_NCX: uM {pub: in, priv: out};
var G_Ca: uM_per_s_mV {pub: in, priv: out};
var v_Ca1: mV {pub: in, priv: out};
var v_Ca2: mV {pub: in, priv: out};
var R_Ca: mV {pub: in, priv: out};
var J_VOCCi: uM_per_s {pub: out, priv: in};
var J_NCXi: uM_per_s {pub: out, priv: in};
var J_SERCAi: uM_per_s {pub: out, priv: in};
var J_CICRi: uM_per_s {pub: out, priv: in};
var J_PMCAi: uM_per_s {pub: out, priv: in};
var J_leaki: uM_per_s {pub: out, priv: in};
var t: second {pub: in};
var ci_init: uM {pub: in};
var c_i: uM {init: ci_init, pub: out, priv: out};
ode(c_i,t)=J_VOCCi-J_NCXi-J_SERCAi+J_CICRi-J_PMCAi+J_leaki;
enddef;
def group as encapsulation for
comp Cai incl
comp JVOCCi;
comp JNCXi;
comp JSERCAi;
comp JCICRi;
comp JPMCAi;
comp Jleaki;
endcomp;
enddef;
def comp Casr as
var L: per_s {pub: in, priv: out};
var C: uM_per_s {pub: in, priv: out};
var s_c: uM {pub: in, priv: out};
var c_c: uM {pub: in, priv: out};
var B: uM_per_s {pub: in, priv: out};
var c_b: uM {pub: in, priv: out};
var J_SERCAi: uM_per_s {pub: out, priv: in};
var J_CICRi: uM_per_s {pub: out, priv: in};
var J_leaki: uM_per_s {pub: out, priv: in};
var t: second {pub: in};
var si_init: uM {pub: in};
var s_i: uM {init: si_init, pub: out, priv: out};
ode(s_i,t)=J_SERCAi-J_CICRi-J_leaki;
enddef;
def group as encapsulation for
comp Casr incl
comp JSERCAi;
comp JCICRi;
comp Jleaki;
endcomp;
enddef;
def comp Vm as
var G_Ki: uM_per_s_mV {pub: in, priv: out};
var v_K: mV {pub: in, priv: out};
var wi_init: dimensionless {pub: in, priv: out};
var lambda: per_s {pub: in, priv: out};
var c_w: uM {pub: in, priv: out};
var v_Ca3: mV {pub: in, priv: out};
var R_K: mV {pub: in, priv: out};
var beta: uM2 {pub: in, priv: out};
var G_NCX: uM_per_s_mV {pub: in, priv: out};
var v_NCX: mV {pub: in, priv: out};
var c_NCX: uM {pub: in, priv: out};
var G_Ca: uM_per_s_mV {pub: in, priv: out};
var v_Ca1: mV {pub: in, priv: out};
var v_Ca2: mV {pub: in, priv: out};
var R_Ca: mV {pub: in, priv: out};
var G_Cl: uM_per_s_mV {pub: in, priv: out};
var v_Cl: mV {pub: in, priv: out};
var C_NKA: uM_per_s {pub: in, priv: out};
var K_mK: mM {pub: in, priv: out};
var gamma: mV_per_uM {pub: in};
var J_NKA: uM_per_s {pub: out, priv: in};
var J_Cli: uM_per_s {pub: out, priv: in};
var J_VOCCi: uM_per_s {pub: out, priv: in};
var J_NCXi: uM_per_s {pub: out, priv: in};
var J_Ki: uM_per_s {pub: out, priv: in};
var t: second {pub: in};
var vi_init: mV {pub: in};
var v_i: mV {init: vi_init, pub: out, priv: out};
ode(v_i,t)=gamma*(-J_NKAi-J_Cli+2{dimensionless}*J_VOCCi+J_NCXi-J_Ki);
enddef;
def group as encapsulation for
comp Vm incl
comp JNKA;
comp JCli;
comp JVOCCi;
comp JNCXi;
comp JKi;
endcomp;
enddef;
def map between Cai and JVOCCi for
vars G_Ca and G_Ca;
vars J_VOCCi and J_VOCCi;
vars R_Ca and R_Ca;
vars v_Ca1 and v_Ca1;
vars v_Ca2 and v_Ca2;
enddef;
def map between Cai and JNCXi for
vars G_NCX and G_NCX;
vars J_NCXi and J_NCXi;
vars c_NCX and c_NCX;
vars c_i and c_i;
vars v_NCX and v_NCX;
enddef;
def map between Cai and JSERCAi for
vars B and B;
vars J_SERCAi and J_SERCAi;
vars c_b and c_b;
vars c_i and c_i;
enddef;
def map between Cai and JCICRi for
vars C and C;
vars J_CICRi and J_CICRi;
vars c_c and c_c;
vars c_i and c_i;
vars s_c and s_c;
enddef;
def map between Cai and JPMCAi for
vars D and D;
vars J_PMCAi and J_PMCAi;
vars R_d and R_d;
vars c_i and c_i;
vars v_d and v_d;
enddef;
def map between Cai and Jleaki for
vars J_leaki and J_leaki;
vars L and L;
enddef;
def map between Casr and JSERCAi for
vars B and B;
vars J_SERCAi and J_SERCAi;
vars c_b and c_b;
enddef;
def map between Casr and JCICRi for
vars C and C;
vars J_CICRi and J_CICRi;
vars c_c and c_c;
vars s_c and s_c;
vars s_i and s_i;
enddef;
def map between Casr and Jleaki for
vars J_leaki and J_leaki;
vars L and L;
vars s_i and s_i;
enddef;
def map between Vm and JNKA for
vars C_NKA and C_NKA;
vars J_NKA and J_NKA;
vars K_mK and K_mK;
enddef;
def map between Vm and JCli for
vars G_Cl and G_Cl;
vars J_Cli and J_Cli;
vars v_Cl and v_Cl;
vars v_i and v_i;
enddef;
def map between Vm and JVOCCi for
vars G_Ca and G_Ca;
vars J_VOCCi and J_VOCCi;
vars R_Ca and R_Ca;
vars v_Ca1 and v_Ca1;
vars v_Ca2 and v_Ca2;
vars v_i and v_i;
enddef;
def map between Vm and JNCXi for
vars G_NCX and G_NCX;
vars J_NCXi and J_NCXi;
vars c_NCX and c_NCX;
vars v_NCX and v_NCX;
vars v_i and v_i;
enddef;
def map between Vm and JKi for
vars G_Ki and G_Ki;
vars J_Ki and J_Ki;
vars R_K and R_K;
vars beta and beta;
vars c_w and c_w;
vars lambda and lambda;
vars v_Ca3 and v_Ca3;
vars v_K and v_K;
vars v_i and v_i;
vars wi_init and wi_init;
enddef;
enddef;
