Location: SLC transporters @ 65898d4880ef / Electrogenic cotransporter / SLC5_BG_Fig10.json
- Author:
- Weiwei Ai <wai484@aucklanduni.ac.nz>
- Date:
- 2024-10-21 14:11:01+13:00
- Desc:
- Modify SGLT1_BG_fast.cellml to allow users to modify test_volt and Glco in the simulation tab.
- Permanent Source URI:
- https://models.physiomeproject.org/workspace/b65/rawfile/65898d4880efb52227f2860ddafb4c8cde585d47/Electrogenic cotransporter/SLC5_BG_Fig10.json
{
"Nai": {
"description": "Concentration of Chemical Species",
"domain": "biochemical",
"id": "ch_Se",
"metamodel": "SS",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "out",
"causality": "e_out",
"in": [
[
"r5",
"1",
"2"
]
],
"out": []
}
},
"params": {
"K": {
"description": "Biochemical Constant; exp(mu_0/RT)/V",
"units": "per_fmol",
"symbol": "K_Nai",
"value": "3.216e-08"
},
"R": {
"description": "Universal Gas Constant",
"units": "J_per_K_mol",
"symbol": "R",
"value": 8.31
},
"T": {
"description": "Temperature",
"units": "kelvin",
"symbol": "T",
"value": 293
},
"q_0": {
"description": "Molar Quantity",
"units": "fmol",
"symbol": "q_Nai",
"value": 1
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "mu_Nai"
},
"f_0": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_Nai",
"expression": "-2*v_r5"
}
},
"constitutive_relations": [
"e_0 - R*T*log(K*q_0)"
],
"conservation_eqs": [
[
"v_Nai",
"-2*v_r5",
""
]
],
"constitutive_eqs": [
[
"mu_Nai",
"R*T*log(K_Nai*q_Nai)",
""
]
]
},
"Nao": {
"description": "Concentration of Chemical Species",
"domain": "biochemical",
"id": "ch_Se",
"metamodel": "SS",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "out",
"causality": "e_out",
"in": [],
"out": [
[
"r1",
"0",
"2"
]
]
}
},
"params": {
"K": {
"description": "Biochemical Constant; exp(mu_0/RT)/V",
"units": "per_fmol",
"symbol": "K_Nao",
"value": "3.216e-08"
},
"R": {
"description": "Universal Gas Constant",
"units": "J_per_K_mol",
"symbol": "R",
"value": 8.31
},
"T": {
"description": "Temperature",
"units": "kelvin",
"symbol": "T",
"value": 293
},
"q_0": {
"description": "Molar Quantity",
"units": "fmol",
"symbol": "q_Nao",
"value": 1
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "mu_Nao"
},
"f_0": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_Nao",
"expression": "2*v_r1"
}
},
"constitutive_relations": [
"e_0 - R*T*log(K*q_0)"
],
"conservation_eqs": [
[
"v_Nao",
"2*v_r1",
""
]
],
"constitutive_eqs": [
[
"mu_Nao",
"R*T*log(K_Nao*q_Nao)",
""
]
]
},
"Glci": {
"description": "Concentration of Chemical Species",
"domain": "biochemical",
"id": "ch_Se",
"metamodel": "SS",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "out",
"causality": "e_out",
"in": [
[
"r4",
"1",
"1"
]
],
"out": []
}
},
"params": {
"K": {
"description": "Biochemical Constant; exp(mu_0/RT)/V",
"units": "per_fmol",
"symbol": "K_Glci",
"value": "4.848e-06"
},
"R": {
"description": "Universal Gas Constant",
"units": "J_per_K_mol",
"symbol": "R",
"value": 8.31
},
"T": {
"description": "Temperature",
"units": "kelvin",
"symbol": "T",
"value": 293
},
"q_0": {
"description": "Molar Quantity",
"units": "fmol",
"symbol": "q_Glci",
"value": 1
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "mu_Glci"
},
"f_0": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_Glci",
"expression": "-v_r4"
}
},
"constitutive_relations": [
"e_0 - R*T*log(K*q_0)"
],
"conservation_eqs": [
[
"v_Glci",
"-v_r4",
""
]
],
"constitutive_eqs": [
[
"mu_Glci",
"R*T*log(K_Glci*q_Glci)",
""
]
]
},
"Glco": {
"description": "Concentration of Chemical Species",
"domain": "biochemical",
"id": "ch_Se",
"metamodel": "SS",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "out",
"causality": "e_out",
"in": [],
"out": [
[
"r2",
"0",
"1"
]
]
}
},
"params": {
"K": {
"description": "Biochemical Constant; exp(mu_0/RT)/V",
"units": "per_fmol",
"symbol": "K_Glco",
"value": "4.848e-06"
},
"R": {
"description": "Universal Gas Constant",
"units": "J_per_K_mol",
"symbol": "R",
"value": 8.31
},
"T": {
"description": "Temperature",
"units": "kelvin",
"symbol": "T",
"value": 293
},
"q_0": {
"description": "Molar Quantity",
"units": "fmol",
"symbol": "q_Glco",
"value": 1
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "mu_Glco"
},
"f_0": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_Glco",
"expression": "v_r2"
}
},
"constitutive_relations": [
"e_0 - R*T*log(K*q_0)"
],
"conservation_eqs": [
[
"v_Glco",
"v_r2",
""
]
],
"constitutive_eqs": [
[
"mu_Glco",
"R*T*log(K_Glco*q_Glco)",
""
]
]
},
"1": {
"description": "Concentration of Chemical Species",
"domain": "biochemical",
"id": "Ce",
"metamodel": "C",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_out",
"in": [
[
"r6",
"1",
"1"
]
],
"out": [
[
"r1",
"0",
"1"
]
]
}
},
"params": {
"K": {
"description": "Biochemical Constant; exp(mu_0/RT)/V",
"units": "per_fmol",
"symbol": "K_1",
"value": "2.235"
},
"R": {
"description": "Universal Gas Constant",
"units": "J_per_K_mol",
"symbol": "R",
"value": 8.31
},
"T": {
"description": "Temperature",
"units": "kelvin",
"symbol": "T",
"value": 293
},
"q_init": {
"description": "Initial Molar Quantity",
"units": "fmol",
"symbol": "q_init_1",
"value": 1
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "mu_1"
},
"f_0": {
"description": "Generalised Flow ",
"units": "fmol_per_s",
"symbol": "v_1",
"expression": "-v_r1 + v_r6"
},
"q_0": {
"description": "Molar Quantity",
"units": "fmol",
"symbol": "q_1",
"initial value": "q_init"
},
"voi": {
"description": "Time",
"units": "second",
"symbol": "t"
}
},
"constitutive_relations": [
"e_0 - R*T*log(K*q_0)",
"ode(q_0,t) - f_0"
],
"conservation_eqs": [
[
"v_1",
"-v_r1 + v_r6",
""
]
],
"constitutive_eqs": [
[
"mu_1",
"R*T*log(K_1*q_1)",
""
],
[
"q_1",
"-v_r1 + v_r6",
"t"
]
]
},
"2": {
"description": "Concentration of Chemical Species",
"domain": "biochemical",
"id": "Ce",
"metamodel": "C",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_out",
"in": [
[
"r1",
"1",
"1"
]
],
"out": [
[
"r2",
"0",
"1"
],
[
"r7",
"0",
"1"
]
]
}
},
"params": {
"K": {
"description": "Biochemical Constant; exp(mu_0/RT)/V",
"units": "per_fmol",
"symbol": "K_2",
"value": "10.437"
},
"R": {
"description": "Universal Gas Constant",
"units": "J_per_K_mol",
"symbol": "R",
"value": 8.31
},
"T": {
"description": "Temperature",
"units": "kelvin",
"symbol": "T",
"value": 293
},
"q_init": {
"description": "Initial Molar Quantity",
"units": "fmol",
"symbol": "q_init_2",
"value": 1
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "mu_2"
},
"f_0": {
"description": "Generalised Flow ",
"units": "fmol_per_s",
"symbol": "v_2",
"expression": "v_r1 - v_r2 - v_r7"
},
"q_0": {
"description": "Molar Quantity",
"units": "fmol",
"symbol": "q_2",
"initial value": "q_init"
},
"voi": {
"description": "Time",
"units": "second",
"symbol": "t"
}
},
"constitutive_relations": [
"e_0 - R*T*log(K*q_0)",
"ode(q_0,t) - f_0"
],
"conservation_eqs": [
[
"v_2",
"v_r1 - v_r2 - v_r7",
""
]
],
"constitutive_eqs": [
[
"mu_2",
"R*T*log(K_2*q_2)",
""
],
[
"q_2",
"v_r1 - v_r2 - v_r7",
"t"
]
]
},
"3": {
"description": "Concentration of Chemical Species",
"domain": "biochemical",
"id": "Ce",
"metamodel": "C",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_out",
"in": [
[
"r2",
"1",
"1"
]
],
"out": [
[
"r3",
"0",
"1"
]
]
}
},
"params": {
"K": {
"description": "Biochemical Constant; exp(mu_0/RT)/V",
"units": "per_fmol",
"symbol": "K_3",
"value": "8.602"
},
"R": {
"description": "Universal Gas Constant",
"units": "J_per_K_mol",
"symbol": "R",
"value": 8.31
},
"T": {
"description": "Temperature",
"units": "kelvin",
"symbol": "T",
"value": 293
},
"q_init": {
"description": "Initial Molar Quantity",
"units": "fmol",
"symbol": "q_init_3",
"value": 1
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "mu_3"
},
"f_0": {
"description": "Generalised Flow ",
"units": "fmol_per_s",
"symbol": "v_3",
"expression": "v_r2 - v_r3"
},
"q_0": {
"description": "Molar Quantity",
"units": "fmol",
"symbol": "q_3",
"initial value": "q_init"
},
"voi": {
"description": "Time",
"units": "second",
"symbol": "t"
}
},
"constitutive_relations": [
"e_0 - R*T*log(K*q_0)",
"ode(q_0,t) - f_0"
],
"conservation_eqs": [
[
"v_3",
"v_r2 - v_r3",
""
]
],
"constitutive_eqs": [
[
"mu_3",
"R*T*log(K_3*q_3)",
""
],
[
"q_3",
"v_r2 - v_r3",
"t"
]
]
},
"4": {
"description": "Concentration of Chemical Species",
"domain": "biochemical",
"id": "Ce",
"metamodel": "C",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_out",
"in": [
[
"r3",
"1",
"1"
]
],
"out": [
[
"r4",
"0",
"1"
]
]
}
},
"params": {
"K": {
"description": "Biochemical Constant; exp(mu_0/RT)/V",
"units": "per_fmol",
"symbol": "K_4",
"value": "8.602"
},
"R": {
"description": "Universal Gas Constant",
"units": "J_per_K_mol",
"symbol": "R",
"value": 8.31
},
"T": {
"description": "Temperature",
"units": "kelvin",
"symbol": "T",
"value": 293
},
"q_init": {
"description": "Initial Molar Quantity",
"units": "fmol",
"symbol": "q_init_4",
"value": 1
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "mu_4"
},
"f_0": {
"description": "Generalised Flow ",
"units": "fmol_per_s",
"symbol": "v_4",
"expression": "v_r3 - v_r4"
},
"q_0": {
"description": "Molar Quantity",
"units": "fmol",
"symbol": "q_4",
"initial value": "q_init"
},
"voi": {
"description": "Time",
"units": "second",
"symbol": "t"
}
},
"constitutive_relations": [
"e_0 - R*T*log(K*q_0)",
"ode(q_0,t) - f_0"
],
"conservation_eqs": [
[
"v_4",
"v_r3 - v_r4",
""
]
],
"constitutive_eqs": [
[
"mu_4",
"R*T*log(K_4*q_4)",
""
],
[
"q_4",
"v_r3 - v_r4",
"t"
]
]
},
"5": {
"description": "Concentration of Chemical Species",
"domain": "biochemical",
"id": "Ce",
"metamodel": "C",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_out",
"in": [
[
"r4",
"1",
"1"
],
[
"r7",
"1",
"1"
]
],
"out": [
[
"r5",
"0",
"1"
]
]
}
},
"params": {
"K": {
"description": "Biochemical Constant; exp(mu_0/RT)/V",
"units": "per_fmol",
"symbol": "K_5",
"value": "47.713"
},
"R": {
"description": "Universal Gas Constant",
"units": "J_per_K_mol",
"symbol": "R",
"value": 8.31
},
"T": {
"description": "Temperature",
"units": "kelvin",
"symbol": "T",
"value": 293
},
"q_init": {
"description": "Initial Molar Quantity",
"units": "fmol",
"symbol": "q_init_5",
"value": 1
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "mu_5"
},
"f_0": {
"description": "Generalised Flow ",
"units": "fmol_per_s",
"symbol": "v_5",
"expression": "v_r4 - v_r5 + v_r7"
},
"q_0": {
"description": "Molar Quantity",
"units": "fmol",
"symbol": "q_5",
"initial value": "q_init"
},
"voi": {
"description": "Time",
"units": "second",
"symbol": "t"
}
},
"constitutive_relations": [
"e_0 - R*T*log(K*q_0)",
"ode(q_0,t) - f_0"
],
"conservation_eqs": [
[
"v_5",
"v_r4 - v_r5 + v_r7",
""
]
],
"constitutive_eqs": [
[
"mu_5",
"R*T*log(K_5*q_5)",
""
],
[
"q_5",
"v_r4 - v_r5 + v_r7",
"t"
]
]
},
"6": {
"description": "Concentration of Chemical Species",
"domain": "biochemical",
"id": "Ce",
"metamodel": "C",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_out",
"in": [
[
"r5",
"1",
"1"
]
],
"out": [
[
"r6",
"0",
"1"
]
]
}
},
"params": {
"K": {
"description": "Biochemical Constant; exp(mu_0/RT)/V",
"units": "per_fmol",
"symbol": "K_6",
"value": "0.319"
},
"R": {
"description": "Universal Gas Constant",
"units": "J_per_K_mol",
"symbol": "R",
"value": 8.31
},
"T": {
"description": "Temperature",
"units": "kelvin",
"symbol": "T",
"value": 293
},
"q_init": {
"description": "Initial Molar Quantity",
"units": "fmol",
"symbol": "q_init_6",
"value": 1
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "mu_6"
},
"f_0": {
"description": "Generalised Flow ",
"units": "fmol_per_s",
"symbol": "v_6",
"expression": "v_r5 - v_r6"
},
"q_0": {
"description": "Molar Quantity",
"units": "fmol",
"symbol": "q_6",
"initial value": "q_init"
},
"voi": {
"description": "Time",
"units": "second",
"symbol": "t"
}
},
"constitutive_relations": [
"e_0 - R*T*log(K*q_0)",
"ode(q_0,t) - f_0"
],
"conservation_eqs": [
[
"v_6",
"v_r5 - v_r6",
""
]
],
"constitutive_eqs": [
[
"mu_6",
"R*T*log(K_6*q_6)",
""
],
[
"q_6",
"v_r5 - v_r6",
"t"
]
]
},
"Vm": {
"description": "Effort Source",
"domain": "Electrical",
"id": "Se",
"metamodel": "SS",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "out",
"causality": "e_out",
"in": [
[
"zf1",
"0",
"1"
],
[
"zr1",
"0",
"1"
],
[
"zf6",
"0",
"1"
],
[
"zr6",
"0",
"1"
]
],
"out": []
}
},
"params": {
"e": {
"description": "Generalised Potential",
"units": "volt",
"symbol": "V0_Vm",
"value": 0
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "volt",
"symbol": "V_Vm"
},
"f_0": {
"description": "Generalised Flow",
"units": "fA",
"symbol": "I_Vm",
"expression": "-I_zf1 - I_zf6 - I_zr1 - I_zr6"
}
},
"constitutive_relations": [
"e_0 - e"
],
"conservation_eqs": [
[
"I_Vm",
"-I_zf1 - I_zf6 - I_zr1 - I_zr6",
""
]
],
"constitutive_eqs": [
[
"V_Vm",
"V0_Vm",
""
]
]
},
"zf1": {
"description": "Biochemical Transformer",
"domain": "biochemical",
"id": "zF",
"metamodel": "TF",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_in",
"in": [],
"out": [
[
"Vm",
"0",
"1"
]
]
},
"1": {
"description": "Power port 1",
"type": "Power",
"direction": "out",
"causality": "e_out",
"in": [
[
"r1",
"0",
"1"
]
],
"out": []
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "volt",
"symbol": "V_zf1",
"expression": "-V_Vm"
},
"f_0": {
"description": "Generalised Flow",
"units": "fA",
"symbol": "I_zf1"
},
"e_1": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "mu_zf1"
},
"f_1": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_zf1",
"expression": "-v_r1"
}
},
"params": {
"r": {
"description": "Ratio",
"value": 1,
"units": "dimensionless",
"symbol": "z_zf1"
},
"F": {
"description": "Faraday's Constant",
"value": 96485,
"units": "C_per_mol",
"symbol": "F"
}
},
"constitutive_relations": [
"e_1 - r * F* e_0",
"f_0 - r * F * f_1"
],
"conservation_eqs": [
[
"V_zf1",
"-V_Vm",
""
],
[
"v_zf1",
"-v_r1",
""
]
],
"constitutive_eqs": [
[
"mu_zf1",
"-V_Vm*F*z_zf1",
""
],
[
"I_zf1",
"-F*v_r1*z_zf1",
""
]
]
},
"zr1": {
"description": "Biochemical Transformer",
"domain": "biochemical",
"id": "zF",
"metamodel": "TF",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_in",
"in": [],
"out": [
[
"Vm",
"0",
"1"
]
]
},
"1": {
"description": "Power port 1",
"type": "Power",
"direction": "out",
"causality": "e_out",
"in": [
[
"r1",
"1",
"1"
]
],
"out": []
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "volt",
"symbol": "V_zr1",
"expression": "-V_Vm"
},
"f_0": {
"description": "Generalised Flow",
"units": "fA",
"symbol": "I_zr1"
},
"e_1": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "mu_zr1"
},
"f_1": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_zr1",
"expression": "-v_r1"
}
},
"params": {
"r": {
"description": "Ratio",
"value": 1,
"units": "dimensionless",
"symbol": "z_zr1"
},
"F": {
"description": "Faraday's Constant",
"value": 96485,
"units": "C_per_mol",
"symbol": "F"
}
},
"constitutive_relations": [
"e_1 - r * F* e_0",
"f_0 - r * F * f_1"
],
"conservation_eqs": [
[
"V_zr1",
"-V_Vm",
""
],
[
"v_zr1",
"-v_r1",
""
]
],
"constitutive_eqs": [
[
"mu_zr1",
"-V_Vm*F*z_zr1",
""
],
[
"I_zr1",
"-F*v_r1*z_zr1",
""
]
]
},
"zf6": {
"description": "Biochemical Transformer",
"domain": "biochemical",
"id": "zF",
"metamodel": "TF",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_in",
"in": [],
"out": [
[
"Vm",
"0",
"1"
]
]
},
"1": {
"description": "Power port 1",
"type": "Power",
"direction": "out",
"causality": "e_out",
"in": [
[
"r6",
"0",
"1"
]
],
"out": []
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "volt",
"symbol": "V_zf6",
"expression": "-V_Vm"
},
"f_0": {
"description": "Generalised Flow",
"units": "fA",
"symbol": "I_zf6"
},
"e_1": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "mu_zf6"
},
"f_1": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_zf6",
"expression": "-v_r6"
}
},
"params": {
"r": {
"description": "Ratio",
"value": 1,
"units": "dimensionless",
"symbol": "z_zf6"
},
"F": {
"description": "Faraday's Constant",
"value": 96485,
"units": "C_per_mol",
"symbol": "F"
}
},
"constitutive_relations": [
"e_1 - r * F* e_0",
"f_0 - r * F * f_1"
],
"conservation_eqs": [
[
"V_zf6",
"-V_Vm",
""
],
[
"v_zf6",
"-v_r6",
""
]
],
"constitutive_eqs": [
[
"mu_zf6",
"-V_Vm*F*z_zf6",
""
],
[
"I_zf6",
"-F*v_r6*z_zf6",
""
]
]
},
"zr6": {
"description": "Biochemical Transformer",
"domain": "biochemical",
"id": "zF",
"metamodel": "TF",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_in",
"in": [],
"out": [
[
"Vm",
"0",
"1"
]
]
},
"1": {
"description": "Power port 1",
"type": "Power",
"direction": "out",
"causality": "e_out",
"in": [
[
"r6",
"1",
"1"
]
],
"out": []
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "volt",
"symbol": "V_zr6",
"expression": "-V_Vm"
},
"f_0": {
"description": "Generalised Flow",
"units": "fA",
"symbol": "I_zr6"
},
"e_1": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "mu_zr6"
},
"f_1": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_zr6",
"expression": "-v_r6"
}
},
"params": {
"r": {
"description": "Ratio",
"value": 1,
"units": "dimensionless",
"symbol": "z_zr6"
},
"F": {
"description": "Faraday's Constant",
"value": 96485,
"units": "C_per_mol",
"symbol": "F"
}
},
"constitutive_relations": [
"e_1 - r * F* e_0",
"f_0 - r * F * f_1"
],
"conservation_eqs": [
[
"V_zr6",
"-V_Vm",
""
],
[
"v_zr6",
"-v_r6",
""
]
],
"constitutive_eqs": [
[
"mu_zr6",
"-V_Vm*F*z_zr6",
""
],
[
"I_zr6",
"-F*v_r6*z_zr6",
""
]
]
},
"r1": {
"description": "Biochemical Reaction",
"domain": "biochemical",
"id": "Re",
"metamodel": "R",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_in",
"in": [
[
"Nao",
"0",
"2"
],
[
"1",
"0",
"1"
]
],
"out": [
[
"zf1",
"1",
"1"
]
]
},
"1": {
"description": "Power port 1",
"type": "Power",
"direction": "out",
"causality": "e_in",
"in": [],
"out": [
[
"2",
"0",
"1"
],
[
"zr1",
"1",
"1"
]
]
}
},
"params": {
"kappa": {
"description": "Reaction Rate",
"units": "fmol_per_s",
"value": "47.906",
"symbol": "kappa_r1"
},
"R": {
"description": "Universal Gas Constant",
"value": 8.31,
"units": "J_per_K_mol",
"symbol": "R"
},
"T": {
"description": "Temperature",
"value": 293,
"units": "kelvin",
"symbol": "T"
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "Af_r1",
"expression": "mu_1 + 2*mu_Nao - mu_zf1"
},
"f_0": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_r1"
},
"e_1": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "Ar_r1",
"expression": "mu_2 + mu_zr1"
},
"f_1": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_r1"
}
},
"constitutive_relations": [
"f_0 - kappa*(exp(e_0/R/T) - exp(e_1/R/T))"
],
"conservation_eqs": [
[
"Af_r1",
"mu_1 + 2*mu_Nao - mu_zf1",
""
],
[
"Ar_r1",
"mu_2 + mu_zr1",
""
]
],
"constitutive_eqs": [
[
"v_r1",
"kappa_r1*(-exp((mu_2 + mu_zr1)/(R*T)) + exp((mu_1 + 2*mu_Nao - mu_zf1)/(R*T)))",
""
]
]
},
"r2": {
"description": "Biochemical Reaction",
"domain": "biochemical",
"id": "Re",
"metamodel": "R",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_in",
"in": [
[
"Glco",
"0",
"1"
],
[
"2",
"0",
"1"
]
],
"out": []
},
"1": {
"description": "Power port 1",
"type": "Power",
"direction": "out",
"causality": "e_in",
"in": [],
"out": [
[
"3",
"0",
"1"
]
]
}
},
"params": {
"kappa": {
"description": "Reaction Rate",
"units": "fmol_per_s",
"value": "2.325",
"symbol": "kappa_r2"
},
"R": {
"description": "Universal Gas Constant",
"value": 8.31,
"units": "J_per_K_mol",
"symbol": "R"
},
"T": {
"description": "Temperature",
"value": 293,
"units": "kelvin",
"symbol": "T"
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "Af_r2",
"expression": "mu_2 + mu_Glco"
},
"f_0": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_r2"
},
"e_1": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "Ar_r2",
"expression": "mu_3"
},
"f_1": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_r2"
}
},
"constitutive_relations": [
"f_0 - kappa*(exp(e_0/R/T) - exp(e_1/R/T))"
],
"conservation_eqs": [
[
"Af_r2",
"mu_2 + mu_Glco",
""
],
[
"Ar_r2",
"mu_3",
""
]
],
"constitutive_eqs": [
[
"v_r2",
"kappa_r2*(-exp(mu_3/(R*T)) + exp((mu_2 + mu_Glco)/(R*T)))",
""
]
]
},
"r3": {
"description": "Biochemical Reaction",
"domain": "biochemical",
"id": "Re",
"metamodel": "R",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_in",
"in": [
[
"3",
"0",
"1"
]
],
"out": []
},
"1": {
"description": "Power port 1",
"type": "Power",
"direction": "out",
"causality": "e_in",
"in": [],
"out": [
[
"4",
"0",
"1"
]
]
}
},
"params": {
"kappa": {
"description": "Reaction Rate",
"units": "fmol_per_s",
"value": "5.813",
"symbol": "kappa_r3"
},
"R": {
"description": "Universal Gas Constant",
"value": 8.31,
"units": "J_per_K_mol",
"symbol": "R"
},
"T": {
"description": "Temperature",
"value": 293,
"units": "kelvin",
"symbol": "T"
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "Af_r3",
"expression": "mu_3"
},
"f_0": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_r3"
},
"e_1": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "Ar_r3",
"expression": "mu_4"
},
"f_1": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_r3"
}
},
"constitutive_relations": [
"f_0 - kappa*(exp(e_0/R/T) - exp(e_1/R/T))"
],
"conservation_eqs": [
[
"Af_r3",
"mu_3",
""
],
[
"Ar_r3",
"mu_4",
""
]
],
"constitutive_eqs": [
[
"v_r3",
"kappa_r3*(exp(mu_3/(R*T)) - exp(mu_4/(R*T)))",
""
]
]
},
"r4": {
"description": "Biochemical Reaction",
"domain": "biochemical",
"id": "Re",
"metamodel": "R",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_in",
"in": [
[
"4",
"0",
"1"
]
],
"out": []
},
"1": {
"description": "Power port 1",
"type": "Power",
"direction": "out",
"causality": "e_in",
"in": [],
"out": [
[
"Glci",
"0",
"1"
],
[
"5",
"0",
"1"
]
]
}
},
"params": {
"kappa": {
"description": "Reaction Rate",
"units": "fmol_per_s",
"value": "93.002",
"symbol": "kappa_r4"
},
"R": {
"description": "Universal Gas Constant",
"value": 8.31,
"units": "J_per_K_mol",
"symbol": "R"
},
"T": {
"description": "Temperature",
"value": 293,
"units": "kelvin",
"symbol": "T"
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "Af_r4",
"expression": "mu_4"
},
"f_0": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_r4"
},
"e_1": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "Ar_r4",
"expression": "mu_5 + mu_Glci"
},
"f_1": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_r4"
}
},
"constitutive_relations": [
"f_0 - kappa*(exp(e_0/R/T) - exp(e_1/R/T))"
],
"conservation_eqs": [
[
"Af_r4",
"mu_4",
""
],
[
"Ar_r4",
"mu_5 + mu_Glci",
""
]
],
"constitutive_eqs": [
[
"v_r4",
"kappa_r4*(exp(mu_4/(R*T)) - exp((mu_5 + mu_Glci)/(R*T)))",
""
]
]
},
"r5": {
"description": "Biochemical Reaction",
"domain": "biochemical",
"id": "Re",
"metamodel": "R",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_in",
"in": [
[
"5",
"0",
"1"
]
],
"out": []
},
"1": {
"description": "Power port 1",
"type": "Power",
"direction": "out",
"causality": "e_in",
"in": [],
"out": [
[
"Nai",
"0",
"2"
],
[
"6",
"0",
"1"
]
]
}
},
"params": {
"kappa": {
"description": "Reaction Rate",
"units": "fmol_per_s",
"value": "0.210",
"symbol": "kappa_r5"
},
"R": {
"description": "Universal Gas Constant",
"value": 8.31,
"units": "J_per_K_mol",
"symbol": "R"
},
"T": {
"description": "Temperature",
"value": 293,
"units": "kelvin",
"symbol": "T"
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "Af_r5",
"expression": "mu_5"
},
"f_0": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_r5"
},
"e_1": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "Ar_r5",
"expression": "mu_6 + 2*mu_Nai"
},
"f_1": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_r5"
}
},
"constitutive_relations": [
"f_0 - kappa*(exp(e_0/R/T) - exp(e_1/R/T))"
],
"conservation_eqs": [
[
"Af_r5",
"mu_5",
""
],
[
"Ar_r5",
"mu_6 + 2*mu_Nai",
""
]
],
"constitutive_eqs": [
[
"v_r5",
"kappa_r5*(exp(mu_5/(R*T)) - exp((mu_6 + 2*mu_Nai)/(R*T)))",
""
]
]
},
"r6": {
"description": "Biochemical Reaction",
"domain": "biochemical",
"id": "Re",
"metamodel": "R",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_in",
"in": [
[
"6",
"0",
"1"
]
],
"out": [
[
"zf6",
"1",
"1"
]
]
},
"1": {
"description": "Power port 1",
"type": "Power",
"direction": "out",
"causality": "e_in",
"in": [],
"out": [
[
"1",
"0",
"1"
],
[
"zr6",
"1",
"1"
]
]
}
},
"params": {
"kappa": {
"description": "Reaction Rate",
"units": "fmol_per_s",
"value": "15.660",
"symbol": "kappa_r6"
},
"R": {
"description": "Universal Gas Constant",
"value": 8.31,
"units": "J_per_K_mol",
"symbol": "R"
},
"T": {
"description": "Temperature",
"value": 293,
"units": "kelvin",
"symbol": "T"
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "Af_r6",
"expression": "mu_6 - mu_zf6"
},
"f_0": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_r6"
},
"e_1": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "Ar_r6",
"expression": "mu_1 + mu_zr6"
},
"f_1": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_r6"
}
},
"constitutive_relations": [
"f_0 - kappa*(exp(e_0/R/T) - exp(e_1/R/T))"
],
"conservation_eqs": [
[
"Af_r6",
"mu_6 - mu_zf6",
""
],
[
"Ar_r6",
"mu_1 + mu_zr6",
""
]
],
"constitutive_eqs": [
[
"v_r6",
"kappa_r6*(-exp((mu_1 + mu_zr6)/(R*T)) + exp((mu_6 - mu_zf6)/(R*T)))",
""
]
]
},
"r7": {
"description": "Biochemical Reaction",
"domain": "biochemical",
"id": "Re",
"metamodel": "R",
"ports": {
"0": {
"description": "Power port 0",
"type": "Power",
"direction": "in",
"causality": "e_in",
"in": [
[
"2",
"0",
"1"
]
],
"out": []
},
"1": {
"description": "Power port 1",
"type": "Power",
"direction": "out",
"causality": "e_in",
"in": [],
"out": [
[
"5",
"0",
"1"
]
]
}
},
"params": {
"kappa": {
"description": "Reaction Rate",
"units": "fmol_per_s",
"value": "0.029",
"symbol": "kappa_r7"
},
"R": {
"description": "Universal Gas Constant",
"value": 8.31,
"units": "J_per_K_mol",
"symbol": "R"
},
"T": {
"description": "Temperature",
"value": 293,
"units": "kelvin",
"symbol": "T"
}
},
"vars": {
"e_0": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "Af_r7",
"expression": "mu_2"
},
"f_0": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_r7"
},
"e_1": {
"description": "Generalised Potential",
"units": "J_per_mol",
"symbol": "Ar_r7",
"expression": "mu_5"
},
"f_1": {
"description": "Generalised Flow",
"units": "fmol_per_s",
"symbol": "v_r7"
}
},
"constitutive_relations": [
"f_0 - kappa*(exp(e_0/R/T) - exp(e_1/R/T))"
],
"conservation_eqs": [
[
"Af_r7",
"mu_2",
""
],
[
"Ar_r7",
"mu_5",
""
]
],
"constitutive_eqs": [
[
"v_r7",
"kappa_r7*(exp(mu_2/(R*T)) - exp(mu_5/(R*T)))",
""
]
]
}
}