TABLE 1

SNPs identified in IAN4L1 and single-locus test results

Variant nameMap positiondbSNPMinor allele frequencyAllelic R2TransmittedNot transmittedP valueLocation
DIL4283149746862rs37574110.35599.35161216020.785′
DIL4284149747929ss144521090.0125′
DIL4285149748019ss134521100.07885.472552480.725′
DIL4287*149748426ss134521120.094htSNP3433330.675′
DIL4286*149748431ss134521110.281htSNP8108110.975′
DIL4344149749043rs38073830.281100.00198619850.975′
DIL4343*149749122rs9178050.047htSNP49660.075′
DIL4348149749357ss134521280.161100.004194240.795′
DIL4347149749574ss134521270.016Exon 1
DIL4345*149750328ss134521250.266htSNP8388590.54Intron 1
DIL4346149750358ss134521260.375100.00118211920.78Intron 1
DIL4288149750835ss134521130.016Intron 1
DIL4289149751082ss134521140.172100.00233823230.60Intron 1
DIL4349149752812ss134521290.266100.008388590.54Intron 1
DIL4350149752813ss134521300.016Intron 1
DIL4351149752974rs47259360.391100.00161516110.92Intron 2
DIL4352*149753023rs47253590.125htSNP245324700.49Intron 2
DIL4353*149753046ss134521330.438htSNP8388610.50Intron 2
DIL4354149753102ss134521340.016Intron 2
DIL4338149753443ss134521210.30097.408458660.54Intron 2
DIL4355149753684ss134521350.276100.008388590.54Intron 2
DIL4342149754385rs7590110.32186.198468670.54Exon 3
DIL4290149754928rs10463550.22491.857577750.55Exon 3
DIL4291*149755077ss134521160.172htSNP268126550.11Exon 3
DIL4293149755128rs103610.26988.147757960.51Exon 3
DIL4292149755534rs65980.26180.686997170.53Exon 3
DIL4294*149755599rs22868990.097htSNP3763780.93Exon 3
DIL4295149755861rs22868980.27497.328388570.583′UTR
DIL4357*149756048ss134521360.160htSNP3433270.533′UTR
DIL4358149757510ss134521370.26798.39200119810.543′
  • Variant name based on local naming scheme for polymorphisms. Map positions on human chromosome 7 from NCBI build 33. Minor allele frequencies shown are based on the sequencing panel of 32 type 1 diabetic subjects. Transmitted and not transmitted were estimated for the ungenotyped SNPs with allele frequencies >0.03 from the regression equations computed in the preliminary sequencing study.

  • *

    * Denotes htSNP. dbSNP numbers for all novel polymorphisms in boldface. Single-locus tests at SNPs other than htSNPs were calculated from imputed data based on htSNP genotypes and LD information obtained from the sequencing panel. Single-locus P values were obtained using paired t tests. Data were not imputed and tests not performed for SNPs with allele frequencies <0.03. UTR, untranslated region.