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Chunk #5 — Results — Characteristics of the examined datasets

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An empirical evaluation of imputation accuracy for association statistics reveals increased type-I error rates in genome-wide associations.
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The results discussed herein are based on data available for approximately 2000 individuals accessed by type-II diabetes and 3000 healthy individuals (controls). We limited our evaluation to 387,662 biallelic markers with full information on both observed (genotyped) and imputed genotype frequencies. This set of markers covers all chromosomes, but sex-linked markers, having no major over-representation in any specific chromosome. A detailed list of the examined markers and their respective imputed and empiric frequencies is available upon request. In this report, the term empiric denotes markers whose allelic frequencies were determined by direct genotyping.