Table 1. Parameters for the basic and extended models.

Parameter	Description	Value (day-1)	References
λ §	Rate uninfected cells restock.	1.54	25
β §	Infection rate.	2.31	3-5,7-8,10
δ	Uninfected cell die-off.	0.01	3-5,7-8,10
α	Infected cell die-off.	0.01	3-5,7-8,10
γ §	Rate infected cells are “cured” by CD4+ cells.	6.58	3-5,7-8,10
c §	T cell responsiveness rate.	1.86	24
σ	T cell die-off.	0.02	3-5,7-8,10
ε §	EB† production rate from infected cells.	2.02	2
q	Rate of EB decay.	2.00	3-5,7-8,10
ξ*§	Ab‡ production rate.	0.12	4,9-10
η*	Ab decay rate.	0.05	4,9-10
φ* §	Number of Ab consumed per disabled EB.	5.41×10-5	4,9-10
k*	Rate EBs are disabled for each EB-Ab complex.	0.001	25

^†EB  =  Elementary Body; ^‡Ab  =  Antibody.

Parameters included in the extended model are indicated by (*). Parameters with (§) have been scaled to be dimensionless with respect to state variables. Scaling was based on an arbitrarily select reference category. State variable reference categories (y_ref, e_ref, z_ref, and u_ref) were the peak values (or lowest, for x_ref) at initial infection.