Table 4.

Estimated Haplotype Frequencies in Patients with T1D and Controls, for 10-SNP IL4R Haplotypes, Based on EM Algorithm Analysis of the Seven-SNP Molecular Haplotype (Table 3) and the Three Additional 5′ SNPs^[Note]

		Frequency in % (SD)c in
HaplotypeLabela	IL4R 10-SNP Haplotypeb	Controls (N=188)f	Patients (N=180)f	ORd (95% CI)	Pe
CC(H-5)	CC-ACCTCCGT	5.8 (1.7)	0	.09 (.0–.5)	.001
CT(H-5)	CT-ACCTCCGT	8.5 (2.3)	5.8 (2.2)	.66 (.3–1.6)	.33
CT(H-3)	CT-GCCTCCGT	.9 (.6)	0	.62 (.0–6.0)	.21
TC(H-3)	TC-GCCTCCGT	0	.9 (1.1)	1.70	.19

Note.— Total χ² (23 df) for all 10-SNP haplotypes = 36.03; P=.04.

^aThe haplotype label names the 10-SNP haplotypes by the identity of the −3223 and −1914 alleles, followed, in parentheses, by the eight-SNP haplotype ID as presented by Mirel et al. (2002).

^bThe hyphen in each haplotype separates the two promoter SNPs from the eight coding-sequence SNPs.

^cThe SD was computed using 100 bootstrap replicates. Of the possible 512 haplotypes, 24 were observed.

^dWhere the frequency in patients was 0, the ORs have been computed under the assumption that a single patient sample carried the haplotype. Where the frequency in controls was 0, the ORs have been computed under the assumption that a single control sample carried the haplotype.

^eDifferences in allele frequencies between cases and controls were tested using a χ² test.

^fSample size (N) refers to the number of chromosomes.