Appendix 3—table 5. Interactions underlying HLA class I associations with early viral load set point in HIV-1 infection in a KIR3DS1^- cohort.

We investigated the interactions underlying HLA class I alleles which were significantly associated with early viral load set point in the absence of KIR3DS1 in HIV-1 infection. For all three alleles the winning model was one in which both TSC.FS and iKIR.FS were covariates (model 7) but in this case only TCR.FS (i.e. alleles with similar TCR binding, shaded) were significantly protective, alleles with similar iKIR binding actually tended to be detrimental (though not significantly) so they cannot explain the protective effect of the B*57 alleles.

			Index allele
Model	COV.		B*57:01	B*57:02	B*57:03
1. Index only	index	Coeff	/	−0.58	−0.39
		P val	/	0.027 *	0.019 *
2. Index+TCR.FS	Index	Coeff	/	−0.59	−0.43
		P val	/	0.023 *	0.011 *
	TCR.FS	Coeff	−0.22	−0.32	−0.29
		P val	0.13	0.12	0.11
3. Index+iKIR.FS	Index	Coeff	/	−0.59	−0.40
		P val	/	0.025 *	0.017 *
	iKIR.FS	Coeff	−0.09	−0.088	−0.05
		P val	0.37	0.47	0.65
4. Index+aKIR.FS	Index	Coeff	/	−0.58	−0.39
		P val	/	0.027 *	0.019 *
	aKIR.FS	Coeff	/	/	/
		P val	/	/	/
5. Index+LILRB1.S	Index	Coeff	/	−0.68	−0.42
		P val	/	0.01 *	0.013 *
	LILRB1.S	Coeff	−0.46	−1.22	−0.51
		P val	0.058 ·	0.02 *	0.3
6. Index+LILRB2.S	Index	Coeff	/	−0.66	−0.46
		P val	/	0.012 *	0.006 **
	LILRB2.S	Coeff	−0.56	−0.80	−1.04
		P val	0.023 *	0.02 *	0.02 *
7. Index+TCR.FS+iKIR.FS	Index	Coeff	/	−0.57	−0.42
		P val	/	0.027 *	0.01 *
	TCR.FS	Coeff	−0.86	−0.62	−0.81
		P val	0.046 *	0.087 ·	0.022 *
	iKIR.FS	Coeff	0.48	0.21	0.38
		P val	0.12	0.32	0.086.