Table 1.

Reaction and rate equations for the processes considered in the mathematical model.

R11:IgE_drug_binding IgE + drug = IgE_drug v11 = k11• IgE • drug − k−11 • IgE_drug k11 = 0.01/pM/min; k−11 = 0.00001/min	R12:IgE_drug_washout IgE_drug + washout -> washout v12 = k12 • IgE_drug • washout k12 = 0.0001/min
R13:CRA_secretion_dyingFibr DyingFibr -> CRA v13 = k13 • DyingFibr k13 = 0.001/min	R14:CRAClipOffHealthyFibr HealthyFibr + MMP7 -> CRA + MMP7 + HealthyFibr v14 = k14 • HealthyFibr • MMP7 k14 = 0.01/pM/min
R15:DyingFibroblast_death DyingFibr -> v15 = k15 • DyingFibr k15 = 0.2/min	R16:Healthy_to_Dying_fibroblast HealthyFibr + TNF-α -> DyingFibr + TNF-α v16 = k16 • HealthyFibr • TNF-α k16 = 0.0005/fM/min
R17:HealthyBacteriaProduction HealthyBacteria -> 2 * HealthyBacteria v17 = k17 • HealthyBacteria k17 = 0.01/min	R18:HealthyFibrProduction free_space + HealthyFibr -> 2 * HealthyFibr v18 = k18 • Free_space • HealthyFibr k18 = 0.485/nM/min
R19:MMP7_release_HealthyFibr HealthyFibr -> HealthyFibr + MMP7 v19 = k19 • HealthyFibr k19 = 0.001/min	R20:MMP7_release_HealthyFibr HealthyFibr -> HealthyFibr + 100 * MMP8 v20 = k20 • HealthyFibr k20 = 0.1/min
R21:Healthy_to_dying Bacteria HealthyBacteria + Protease -> DyingBacteria v21 = k21 • HealthyBactmia • Protease k21 = 0.005 fM/min	R22:CRA_binding MastCells_IgE + CRA = MastCells_IgE_CRA v22 = k22 • MastCells_IgE • CRA −k22 • MastCells_IgE_CRA k22 = 0.1/fM/min; k−22 = 0.1/min
R23:IgE_binding IgE + MastCells = MastCells_IgE v23 = k23 • MastCells_IgE −k23 • MastCells_IgE k23 = 0.1/fM/min; k−23 = 0.1/min	R24:TNF-α_production MastCells_IgE_CRA -> TNF-α + MastCells_IgE_CRA v24 = k24 • MastCells_IgE • CRA k24 = 5.0/min
R25:Protease_production MastCells_IgE_CRA -> Protease + MastCells_IgE_CRA v25 = k25 • MastCells_IgE_CRA k25 = 65/min	R26:Dying Bacteria secrete antigen DyingBacteria -> 1,000 * CRA V26 = k26 • Dyingbacteria k26 = 10/min
R27:Dying Bacteria_death DyingBacteria -> v27 = k27 • Dyingbactetia k27 = 0.1/min

In the table, each process considered has been given a number, which follows the symbol ‘R’ for reaction (see also Figure 1). A description name is given for each process, followed by both chemical reaction equation, a rate equation, and the parameter values used. Where substances occur on both sides of the arrow in a reaction equation, they are mere (catalytic) influences on the process, without themselves being consumed. This corresponds to the dotted arrows in Figure 1. = refers to a reversible reaction and to a ◊ reaction treated as irreversible.