Table 2– Results of multifactor dimensionality reduction analysis evaluating Toll-like receptors (TLRs), TLR-related genes and proxy measurements of high microbial exposure

Number of variables in model	Best model		Mean CV consistency	Mean prediction error %	p_perm^#	OR (95% CI)^¶	p-value
Number of variables in model	Gene(s) and/or environmental factors	SNP(s)	Mean CV consistency	Mean prediction error %	p_perm^#	OR (95% CI)^¶	p-value
Total IgE age 1-2 yrs
1	Siblings		8.2	0.44	0.004	2.3 (1.6–3.3)	0.000008
2	Siblings, TLR6	rs1039559	2.6	0.45	0.04	4.6 (2.1–9.7)	0.00008
3	Day-care, Siblings, LBP	rs2232596	3.0	0.43	0.007	NA⁺
Total IgE 6–8 yrs
1	LBP	rs745144	4.6	0.46	0.13	1.3 (1.0–1.7)	0.07
2	TLR10, LY96 (MD2)	rs11096957, rs7838114	2.0	0.42	0.03	0.4 (0.2–0.6)	0.0006
3	Siblings, CD14, LBP	rs2915863, rs745144	2.4	0.45	0.03	NA⁺
Specific IgE to indoor allergens 6–8 yrs
1	TLR1	rs5743604	4.2	0.45	0.04	0.6 (0.5–0.9)	0.005
2	TLR6, TLR6	rs5743798, rs5743810	4.4	0.45	0.08	0.7 (0.3–1.5)	0.5
3	TLR1, LBP, TLR5	rs5743594, rs6025085, rs851186	4.2	0.40	0.02	NA⁺

SNP: single-nucleotide polymorphism; CV: cross validation; Ig: immunoglobulin; LBP: lipopolysaccharide-binding protein; NA: not available. ^#: significance of prediction error (empirical p-value based on 1,000 permutations); ^¶: after logistic regression with no or one older sibling and/or wild-type genotype in a recessive model used as the reference category; ⁺: logistic regression was not performed on three-factor interactions.