Table 1 Characteristics of the three gene regions studied. Total number of SNPs in the study panel includes the masked SNPs (23 T2D associated) and scaffold SNPs. The density of the study’s experiments is compared with the density of two second-generation genotyping platforms with approximately 1 and 2.5 million SNPs
From: The hazards of genotype imputation when mapping disease susceptibility variants
Gene regions | ACTL7B | KCNK3 | TCF7L2 |
|---|---|---|---|
Chromosome | 9q | 2p | 10q |
Genomic location in bp (B37) | 111550543–111589986 | 26894433–26935356 | 114740628–114748940 |
Distance in kb | 39.4 | 40.9 | 8.3 |
Total SNPs in the NGS study (197) | 118 | 59 | 20 |
Total significant T2D-associated SNPs (23) | 7 | 8 | 8 |
Density (average number of SNPs per 1Â kb) | |||
 Our NGS study panel | 3.0 | 1.5 | 2.4 |
 Affymetrix 6.0 1-M SNP array | 0.7 | 0.3 | 0.5 |
 Illumina Omni 2.5-M SNP array | 0.9 | 0.7 | 0.7 |