Type 2 Diabetes Results (updated March 2007)

Results Summary

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Detailed Results for Type 2 Diabetes

• Description of downloadable tables
  Presented for online browsing are the top SNP results (if actually genotyped) and nominal multi-marker tested SNPs with p-values less than 0.001, ranked by p-value. A full tab-delimited file containing all 671,699 tests performed is available for download. Multi-marker tests were performed using the two best-SNP proxies based on the CEU HapMap project data (see Pe’er et al. 2006 for details), and a list of these informative proxy SNPs used for the test are available for download. The material available for online browsing contains the following information:

  Note: Headers apply to all results files for the DGI 500K Whole Genome Data.

• CHR	Chromosome Location
  PHYS_POS	Physical position (according to NCBI build 35)
  SNP	SNP identifier (“i_” flag denotes tested SNP by multi-marker imputation)
  Z_PVAL	P-value of the Z-score test statistic
  ZSCORE	Z-score statistic for Population/Familial sample meta-analysis
  OR_CMH	Odds Ratio for CMH test
  L95	Lower 95% CI for odds ratio for CMH odds ratio
  U95	Upper 95% CI for odds ratio for CMH odds ratio
  A1	Minor allele in Population-based case/control sample
  A2	Major allele in Population-based case/control sample
  MAF	Frequency of A1 allele in Population-based case/control sample
  F_A	Frequency of A1 in all affecteds
  F_U	Frequency of A1 in all unaffecteds
  GENO	Genotype counts in whole sample (A1 homozygous/heterozygous/A2 homozygous)
  GENO_A	Genotype counts in affecteds
  GENO_U	Genotype counts in unaffecteds
  P_HWD	P-value for Hardy-Weinberg test (all samples)
  P_HWD_A	P-value for Hardy-Weinberg test (cases only)
  P_HWD_U	P-value for Hardy-Weinberg test (controls samples)
  F_MISS	Overall frequency of missing data for this SNP
  F_MISS_A	Frequency of missing data in affecteds
  F_MISS_U	Frequency of missing data in unaffecteds
  P_MISS	P-value for affected/unaffected differential missing data test
  GENE_LIST	Annotation of genes within 30kb of the SNP
  RANK	Rank order of the SNP over all tested SNPs (according to GC)

  Note: Headers apply to all results files for the DGI 500K Whole Genome Data.

• Table of the Top Single Marker and Multi-Marker Results for Association to Type 2 Diabetes in 2931 Scandinavian Patients (html) updated March 2007
• Table of all Single Marker and Multi-Marker Results for Association to Type 2 Diabetes in 2931 Scandinavian Patients (text) updated March 2007
• Instructions for using the results files