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. Author manuscript; available in PMC: 2010 Jan 12.
Published in final edited form as: Genes Immun. 2009 Dec;10(Suppl 1):S42–S48. doi: 10.1038/gene.2009.90

Table 2.

Transmission of the T1D-associated SNPs conditioning on the H5 haplotype

SNP MAF T1D association P P value conditional on
the H5 haplotype
rs706778 0.439 (T) 0.046 0.728
rs2104286 0.231 (C) 6.56 × 10−4 0.552
rs3134883 0.322 (A) 0.014 4.29 × 10−3
rs3118470 0.342 (C) 4.43 × 10−3 3.37 × 10−3
rs7072793 0.443 (C) 0.043 3.93 × 10−3
rs4749955 0.426 (C) 1.10 × 10−3 9.90 × 10−4
rs12251307 0.099 (A) 1.64 × 10−3 1.35 × 10−3

Abbreviations: MAF, minor allele frequency; SNP, single-nucleotide polymorphism; T1D, type I diabetes.

Results are based on the Illumina genotyping data. The conditioning analysis was done using the conditional extended TDT method,11 implemented in the UNPHASED software package (http://www.mrc-bsu.cam.ac.uk/personal/frank/software/unphased/).13 As shown by the conditioning analysis, five SNPs remain significant after conditioning on the H5 haplotype.