- Author:
- Shelley Fong <sfon036@UoA.auckland.ac.nz>
- Date:
- 2022-07-06 16:25:53+12:00
- Desc:
- Updating to LRd 34.4 pL cell parameters
- Permanent Source URI:
- https://models.physiomeproject.org/workspace/82b/rawfile/ee4f9b7507acea6a3a4a0a95a7780ce304e8f26e/parameter_finder/kinetic_parameters_NaB.py
# fast Na module
# Return kinetic parameters, constraints, and vector of volumes in each
# compartment (pL) (1 if gating variable, or in element corresponding to
# kappa)
# Translated from Pan 2018 cardiac AP
import numpy as np
def kinetic_parameters(M, include_type2_reactions, dims, V):
# Set the kinetic rate constants
num_cols = dims['num_cols']
num_rows = dims['num_rows']
# constants are stored in V
F = V['F']
N_A = V['N_A']
x_Nab_channel = 10000*725 / N_A * 1e15 #unit fmol
x_Nab_channel = V['numChannels']/N_A*1e15 # unit fmol
G_GHK = 1.622987611682678e-11
# convert to permeability
P_Cab = G_GHK / F * 1e12 #Unit pL / s
channel_k = P_Cab #/ x_Nab_channel
kf =[channel_k]
kr =[channel_k]
k_kinetic = kf + kr
# CONSTRAINTS
N_cT = []
K_C = []
# volume vector
# W = list(np.append([1] * num_cols, [V['V_myo']] * num_rows))
W = [1] * num_cols + [V['V_myo'], V['V_o']]
return (k_kinetic, N_cT, K_C, W)