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Over 27M SNPs, indels, and structural variants were identified, including 99% of low-frequency (minor allele frequency [MAF] 0.1\u20135%) non-coding variants in the whole-genome sequenced individuals and 99.7% of low-frequency coding variants in the whole-exome sequenced individuals. Each variant was tested for association with T2D in the sequenced individuals, and, to increase power, most were tested in larger numbers of individuals (&gt;80% of low-frequency coding variants in ~82\u2009K Europeans via the exome chip, and ~90% of low-frequency non-coding variants in ~44\u2009K Europeans via genotype imputation). 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