Table 1. Reference parameter set.
The entire model is available at www.compucell3d.org/Models—listed as Emergent Stratification Model. For an explanation of the effective units of these parameters see text.
| Parameter description | Value |
|---|---|
| Lattice Dimension | 500x500x1 |
| Cell Mambrane Fluctuation (T m) | 50 |
| Voxel Copy Neighbor Order | 3 |
| Simulation Duration (in MCS) | 1000001 |
| Initial density of FN molecule in Medium, see Eq (8) | 16.0 |
| Initial density of Cad molecule in PCancer, see Eq (8) | 8.0 |
| Initial density of Int molecule in PCancer, see Eq (8) | 8.0 |
| Initial density of Cad molecule in QCancer, see Eq (8) | 8.0 |
| Initial density of Int molecule in QCancer, see Eq (8) | 8.0 |
| Initial density of Cad molecule in PStem, see Eq (8) | 8.0 |
| Initial density of Int molecule in PStem, see Eq (8) | 8.0 |
| Initial density of Cad molecule in QStem, see Eq (8) | 8.0 |
| Initial density of Int molecule in QStem, see Eq (8) | 8.0 |
| Cad-Cad binding parameter—k m, n, see Eq (8) | 2.0 |
| Int-FN binding parameter—k m, n, see Eq (8) | 0.2 |
| Glucose diffusion constant, see Eq (15) | 13500.0 |
| Glucose decay constant, see Eq (15) | 0.45 |
| QStem glucose max. uptake rate, see Eq (14) | 1.69 |
| QStem Michaelis-Menten-Coefficient, see Eq (14) | 0.00256 |
| PStem glucose max. uptake rate, see Eq (14) | 2.25 |
| PStem Michaelis-Menten coefficient, see Eq (14) | 0.00256 |
| QCancer glucose max. uptake rate, see Eq (14) | 1.69 |
| QCancer Michaelis-Menten-Coefficient, see Eq (14) | 0.00256 |
| PCancer glucose max. uptake rate, see Eq (14) | 2.25 |
| PCancer Michaelis-Menten coefficient, see Eq (14) | 0.00256 |
| Uniform glucose secretion rate—Medium | 0.145 |
| Initial target volume (ip.Vo) | 16.0 |
| Initial target surface (ip.S0) | 16.0 |
| Lambda volume— (ip.LBD_V0) | 15.0 |
| Lambda surface— (ip.LBD_S0) | 5.0 |
| Growth-rate factor (ip.incvol)—k see Eq (21) | 0.2 |
| Shrinkage-rate factor (ip.decvol)— see Eq (25) | 0.01 |
| Cancer-cell doubling volume (self.volmaxmit) | 32 |
| Stem-cell doubling volume (self.Svolmaxmit) | 32 |
| Maximum number of divisions (ip.maxdiv) | 8 |
| Probablilty of daughter cell becoming stem cell (ip.probstem) | 0.2 |
| Probability of cadherin mutation—p m (ip.probmut) | 0.1 |
| Width (δ d = δ am) of cadherin value distribution function, see Eq (26) | 2.0 |
| Initial relaxation threshold (ip.MCSThr) | 50 |
| Concentration threshold for PCancer cells’ growth (ip.PGrThr0) | 0.032 |
| Concentration threshold for PStem cells’ growth (ip.SGrThr0) | 0.032 |
| PCancer-to-Necrotic-transition damage threshold (ip.PNeThr0) | 102.0 |
| QCancer-to-Necrotic-transition damage threshold (ip.QNeThr0) | 204.0 |
| PStem-to-Necrotic-transition damage threshold (ip.SNeThr0) | 408.0 |
| QStem-to-Necrotic-transition damage threshold (ip.QSNeThr0) | 916.0 |
| QCancer-to-PCancer-transition health threshold (ip.QPThr0) | 79.5 |
| QStem-to-PStem-transition health threshold (ip.QSSThr0) | 79.5 |
| Damage accumulation threshold (ip.GluD) | 0.0032 |