Table 2.
Parameter set - parameters of the simulation.
| PARAMETER | SYMBOL | MEANING | RANGE | VALUE (UNITS) | REF. |
|---|---|---|---|---|---|
| KNOWN VALUES | |||||
| DupStepB | dB | B's duplication steps | N | 4 | [34] |
| DupStepTH | dTH | TH's duplication steps | N | 4 | [34] |
| VelocityB | vB | B cells' velocity | R | 6 μm/min | [27,28] |
| VelocityTH | vTH | TH's velocity | R | 11 μm/min | [27,28] |
| VelocityDC | vDC | DCs' velocity | R | 3 μm/min | [25] |
| DiffCoeff | D | chemokines' diffusion coeff. | R | 3·103 μm2/min | [27,28] |
| HalfLife | λ | chemokines' half life | R | 3 hrs | [25,26] |
| NInitial [B] | B(0) | B's initials per μl | N | 105 (cells/μl) | [5,31] |
| NInitial [TH] | TH(0) | TH's initials per μl | N | 2·105 (cells/μl) | [5,31] |
| NInitial [DC] | DC(0) | DC's initials per μl | N | 103 (cells/μl) | [5,31] |
| NCELLS_B_ENTRY | fB | incoming flux of TH cells | N | 31 cells/min | [5] |
| NCELLS_TH_ENTRY | fTH | incoming flux of TH cells | N | 190 cells/min | [5] |
| ARBITRARY PARAMETERS | |||||
| NBITSTR | l | bit-string length | N | 22 (*) | - |
| pDCAg | pDC | DC affinity to Ag (prob) | [0, 1] | 0.04 | - |
| nHEV | nHEV | numbers of HEV per μl | N | 4 (μl-1) | [30] |
| pExit | pExit | exit prob for cells | [0, 1] | 0.44 | - |
| ChemQty | q | released chemokines qty | R | 108 mol (min src)-1 | [35] |
| INITIAL CONDITIONS | |||||
| microL | mL | volume | N | 10 (μl) | - |
| deltaT | Δt | time resolution | R | 30 (min) | - |
| nSteps | T | time steps of the simulation | N | 500 (steps) | - |
| AgInjFreq | fAg | injection freq. of soluble Ags | N | 4 (day-1) | - |
| AgInjQty | nAg | soluble Ags per injection | N | 100 | - |
Values that are taken from literature are provided with references. N and R indicate integer and real numbers respectively. (*) This choice of the bit string length represents a tradeoff between the computational cost of the simulation and the variability required for a realistic description of receptors repertoire.