Table 1.

All markers genotyped in the Chr21 cytokine receptor II cluster

Gene	Location	SNP name	dbSNP reference†	Genotyping method	Minor allele frequency	Controls versus Severe Malaria cases
						Initial screen		Full screen
						Overall χ2	P	Overall χ2	P	Pcorr
IFNAR2	exon1	F8S	rs4986956	Sequenom	0.083	0.274	0.601
IL10RB	intron2	224170(a-c)	rs962861	Sequenom	0.26	1.587	0.452
IL10RB	intron2	224455(c-t)	rs2849997	Sequenom	0.26	1.04	0.595
IL10RB	intron3	224770(g-a)	rs2285020	Sequenom	0.26	1.59	0.452
IL10RB	intron3	225588(c-t)	rs2510317	Sequenom	0.26	0.910	0.635
IL10RB	intron4	230146(g-a)	rs2247177	Sequenom	0.36	7.62	0.022	5.23	0.073
IL10RB	intron5	233477(g-t)	rs2850004	Sequenom	0.25	1.17	0.556
IL10RB	intron6	242023(a-g)	rs1467845	Sequenom	0.20	0.70	0.706
IL10RB	3′UTR	+1165	rs3171425	Sequenom	0.34	3.86	0.145 ¶	12.01	0.002	0.001
IL10RB	3′UTR	+1797	rs1058867	Sequenom	0.33	3.55	0.170 ¶	10.18	0.006	0.010
	intergenic	256042(a-c)	Sequenced	Sequenom	0.26	0.72	0.699
	intergenic	260181(c-t)	Sequenced	RFLP (BglII)	0.37	2.87	0.238
	intergenic	263001(a-t)	Sequenced	Sequenom	0.24	2.21	0.332
IFNAR1	5′UTR	264190(g-a)	Sequenced	Sequenom	0.072	1.06‡	0.58
IFNAR1	5′UTR	264561(c-a)	Sequenced	Sequenom	0.032	0.09	0.765
IFNAR1	5′UTR	264900(a-g)	Sequenced	Sequenom	0.035	0.49	0.483
IFNAR1	5′UTR	267677(c-a)	Sequenced	Sequenom	0.42	0.81	0.668
IFNAR1	5′UTR	267717(g-t)	Sequenced	Sequenom	0.43	9.42	0.009	9.95	0.007	0.007
IFNAR1	5′UTR	268710(g-a)	Sequenced	RFLP (TaqI)	0.34	4.73	0.091	6.64	0.036	0.037
IFNAR1	5′UTR	272354c-g	Sequenced§	RFLP (BslI)	0.35	5.75	0.056	12.39	0.002	0.007
IFNAR1	intron1	273628(a-g)	rs2856968	Sequenom	0.31	5.97	0.050	8.53	0.010	0.1
IFNAR1	intron1	273806(a-g)	rs2856969	Sequenom	0.33	6.05	0.049	5.22	0.073
IFNAR1	intron1	274454(g-a)	rs2211687	Sequenom	0.24	0.90	0.639
IFNAR1	intron1	274571(a-g)	rs2226299	Sequenom	0.041	1.06‡	0.75
IFNAR1	intron1	275556(a-g)	rs1041429	Sequenom	0.32	0.60	0.741
IFNAR1	intron1	275987(c-t)	Sequenced	RFLP (BbvI)	0.082	0.26‡	1.0
IFNAR1	intron1	276152(g-a)	Sequenced	Sequenom	0.20	0.13	0.935
IFNAR1	intron1	276163(g-a)	Sequenced	RFLP (BtgI)	0.30	1.32	0.516
IFNAR1	intron1	277223(t-c)	Sequenced	Sequenom	0.069	0.63‡	0.75
IFNAR1	intron1	279350(t-c)	Sequenced	Sequenom	0.24	0.38	0.827
IFNAR1	intron1	279749(t-c)	Sequenced	Sequenom	0.31	0.95	0.621
IFNAR1	intron1	279923(c-t)	Sequenced	Sequenom	0.36	4.25	0.119 ¶	11.65	0.003	0.004
IFNAR1	intron1	282792(g-a)	Sequenced	Sequenom	0.094	1.54	0.215
IFNAR1	intron1	283455(t-g)	rs2243592	Sequenom	0.32	3.44	0.179
IFNAR1	intron2	283708(a-g)	rs2243594	Sequenom	0.35	9.28	0.0096	12.06	0.002	0.0003
IFNAR1	intron2	288443c-g	Sequenced	RFLP (BfaI)	0.22	1.22	0.544
IFNAR1	exon3	D71D	rs9981753	RFLP (MfeI)	0.14	4.34	0.114 ¶	5.79	0.055
IFNAR1	intron5	293058(t-c)	Sequenced	RFLP (Fnu4HI)	0.043	1.00‡	0.92
IFNAR1	exon8	Thr359Met	Sequenced	RFLP (AleI)	0.27	0.11	0.946
IFNAR1	intron9	301038(c-t)	Sequenced	Sequenom	0.10	1.42‡	0.49
IFNAR1	intron10	302978(g-a)	Sequenced	RFLP (BsrBI)	0.31	2.06	0.358
IFNAR1	3′UTR	304881(g-a)	Sequenced	Sequenom	0.11	0.25‡	1.0
	intergenic	305571(c-t)	Sequenced	RFLP (XmaI)	0.24	3.09	0.214
	intergenic	309290(a-g)	Sequenced	Sequenom	0.37	0.22	0.897
	intergenic	314882(g-c)	Sequenced	RFLP (BseRI)	0.24	1.448	0.485

All P values were derived from overall genotypic comparisons between the controls and severe malaria cases. P <0.1 are italicized; P<0.05 are in bold. Pcorr represent P values after adjusting for sickle cell trait, ethnicity, age, sex, and household location.

^¶Those markers with a P value of <0.1 on other tests as described in materials and methods.

^‡Denotes that the Fisher’s exact test has been performed.

^†Markers denoted by ‘Sequenced’ were identified by direct sequencing.

^§IFNAR1 272354c-g is now identified as rs2843710 on dbSNP.