Table 6.

Prediction of clinical activity status by genotype at each of 19 genetic polymorphisms: all response-evaluable patients with genetic polymorphism data and status = benefit or non-benefit.

Gene	Polymorphism	N	DF	P-value	OR: Genotype 1/2 vs 1/1		OR: Genotype 2/2 vs 1/1
					Estimate	95% CI	Estimate	95% CI
BTNL2	rs2076530	56	2	0.48	0.40	0.08, 1.93	0.81	0.12, 5.25
CCR5	CCR5d32	57	2	0.54	0.41	0.04, 3.83	0.00	0.00, Inf
CCR5	rs1799987	57	2	0.80	0.76	0.17, 3.39	1.35	0.25, 7.35
CD86	rs1129055	57	2	0.11	1.92	0.50, 7.38	0.00	0.00, Inf
CD86	rs2681417	55	1	0.52	2.39	0.18, 31.0	NA	NA, NA
CTLA4	rs11571317	57	1	0.78	0.73	0.07, 7.25	NA	NA, NA
CTLA4	rs1863800	55	2	0.06	0.35	0.08, 1.45	0.00	0.00, Inf
CTLA4	rs231775	56	2	0.05	0.43	0.07, 2.73	3.75	0.72, 19.42
CTLA4	rs3087243	55	2	0.07	0.39	0.09, 1.62	0.00	0.00, Inf
CTLA4	rs4553808	56	2	0.08	0.19	0.02, 1.76	3.25	0.37, 28.28
IFNAR1	rs2257167	57	2	0.98	0.93	0.23, 3.80	1.24	0.10, 14.60
IFNAR2	rs7279064	57	2	0.59	0.83	0.22, 3.15	0.00	0.00, Inf
IFNG	rs2069705	57	2	0.79	0.71	0.18, 2.82	0.50	0.05, 5.31
IFNG	rs2430561	56	2	0.67	1.22	0.20, 7.31	2.36	0.30, 18.72
IL23R	rs1004819	57	2	0.95	0.81	0.19, 3.37	0.97	0.14, 6.52
IL23R	rs11209026	57	1	0.40	0.42	0.05, 3.93	NA	NA, NA
IL23R	rs2201841	56	2	0.82	0.64	0.15, 2.65	0.80	0.07, 9.43
IL23R	rs7517847	56	2	0.35	2.33	0.50, 10.85	0.67	0.06, 7.77
PTPN22	rs2476601	57	1	0.95	0.93	0.09, 9.69	NA	NA, NA

1/1 = major-allele homozygote; 1/2 = heterozygote; 2/2 = minor-allele homozygote.

CI = Confidence Interval.

DF = degrees of freedom for likelihood-ratio test (LRT).

Inf = infinite.

N = number of patients with non-missing genotypes.

OR = odds ratio comparing the odds of Status = Benefit between two genotype classes. OR > 1 means that the odds of Benefit were greater for class 1/2 or 2/2 than for class 1/1.

NA = not estimable.

P-value is for a logistic regression LRT of whether both (if > 1 estimable) odds ratios = 1.