Table A1.

Definitions and estimates of model parameters

Effect	Parameter	Est’d Value	LHS Rangea	References
NF-κB turnover	a1	2.4 h−1	[0.01, 50]	(Hoffmann et al., 2002)
Stat1 turnover	a2	2.77 h−1	[0.01, 50]	(Haspel et al., 1996)
iNOS mRNA turnover	a3	0.173 h−1	[0.116, 0.347]	(Ray & Kirschner, 2006)
INOS turnover	a4	0.0693 h−1	[0.0365, 0.693]	(Ray & Kirschner, 2006)
NHA turnover	a5	5.545 µmol/h	[5.454, 332.711]	(Ray & Kirschner, 2006)
NO turnover	a6	2.773 h−1	[2.727, 166.355]	(Ray & Kirschner, 2006)
LIP turnover	a7	32.201 µmol/h	[2.565, 61.820]	(Ray & Kirschner, 2006)
Ferritin turnover	a8	40.0 µmol/h	[4, 89]	(Ray & Kirschner, 2006)
IRP turnover	a9	35.0 µmol−1 h−1	[29.17, 44.06]	(Ray & Kirschner, 2006)
NF-κB reg. by TNF	g111	1.18	Not Varied	(Harant et al., 1996)
TNF conc. scaling	dTNF	117.4	Not Varied	(Harant et al., 1996)
Stat1 reg. by IFN-γ	g212	cf. Table A2	Not Varied	cf. Table A2
IFN-γ conc. scaling	dIFN-γ	20	Not Varied	cf. Table A2
NF-κB txn reg.	g31	cf. Table A2	[0.1, 1.5]	cf. Table A2
Stat1 txn reg.	g32	0.26	[0.1, 1]	cf. Table A2
LIP txn reg.	g37	−0.177	[−0.1, −2]	(Ray & Kirschner, 2006)
NO feedback to NF-κB	g16	cf. Table A2	[−0.3, −1.5]	(Hattori et al., 2004); cf. Table A2
NO feedback to Stat1	g26	−0.5	[−0.3, −1.5]	(Ray & Kirschner, 2006)
Translation	g43	1	Not Varied	(Ray & Kirschner, 2006)
Arg NHA reg.	g54	1	Not Varied	(Ray & Kirschner, 2006)
NHA NO reg.	h54	1	Not Varied	(Ray & Kirschner, 2006)
reg. Of iron influx	g79	0.5	[0.1, 1.5]	(Ray & Kirschner, 2006)
LIP sequestration	h78	0.74	Not Varied	(Kakhlon et al., 2001)
IRP reg. of ferritin	g89	−0.645	[−0.1, −2]	(Ray & Kirschner, 2006)
LIP Ferritin	h87	1	Not Varied	(Ray & Kirschner, 2006)
NO reg. of IRP	h96	−0.5	[−0.1, −1]	(Ray & Kirschner, 2006)
LIP reg. of IRP	h97	0.5	[0.4, 2]	(Ray & Kirschner, 2006)
Mtb growth rate	αb	0.0250 Mtb/h	[0.0191, 0.0385]	Avg. of (Graham & Clark-Curtiss, 1999; Manca et al., 1999; Silver et al., 1998; Zhang et al., 1998)
NO reg. of Mtb growth	gbNO	−0.5	[−0.3, −1.5]	Initial guess
Iron enhancement of Mtb growth	gbLIP	1	[0.3, 1.0]	Initial guess
Iron effect saturation	kbLIP	1	[0.1, 2]	Initial guess
Intrinsic Mtb death rate	βb	2.5×10−4 Mtb/h	[2.5 × 10−5, 2.5 × 10−4]	1 % of αb
Killing by NO	hbNO	0.75	[0.1, 2]	Initial guessb
NF-κB reg. by LAM	gκB	0.2	Not Varied	cf. Table A2
Sloughed LAM	σ	120 Mtb−1	[10, 10000]	(Nigou et al., 2000)
Scaling of Mtb on LIP	kLIPb	106 Mtb−1	Not Varied	Initial guess
Effect of Mtb on LIP	hLIPb	0.05	[0.1, 0.001]	Initial guess
Maximum Mtb per Mϕ	bmax	50 Mtb/Mϕ	Not Varied	Guess from (Paul et al., 1996; Zhang et al., 1998)

^aLHS: Latin hypercube sampling.

^bCalibrated to achieve approximately 50% killing at the default cytokine dose for default parameter values.