Table 1.
The regenotyping results for the different genotyping platforms.
| Platform | rsID | Obs. | Seq. | ci | pVal | |
| SNPstream | rs6743724 | AA | 47 | 0 | 1.000 | 0.231 |
| Aa | 427 | 2 | 0.995 | |||
| aa | 1009 | 16 | 0.984 | |||
| rs699512 | AA | 239 | 3 | 0.987 | 0.0277 | |
| Aa | 1064 | 3 | 0.997 | |||
| aa | 1309 | 15 | 0.989 | |||
| Illumina | rs2277632 | AA | 351 | 8 | 0.978 | 1.42 × 10-5 |
| Aa | 1129 | 1 | 0.999 | |||
| aa | 941 | 2 | 0.998 | |||
| rs1457043 | AA | 449 | 1 | 0.998 | 0.463 | |
| Aa | 1198 | 6 | 0.995 | |||
| aa | 775 | 1 | 0.999 | |||
| TaqMan | rs10109984 | AA | 111 | 1 | 0.991 | 0.0898 |
| Aa | 480 | 9 | 0.981 | |||
| aa | 513 | 20 | 0.962 | |||
| rs11226 | AA | 242 | 4 | 0.984 | 0.599 | |
| Aa | 568 | 17 | 0.971 | |||
| aa | 298 | 8 | 0.974 | |||
| GeneChip 500 K | rs11928855 | AA | 66 | 22 | 0.750 | 2.26 × 10-15 |
| Aa | 243 | 1 | 0.996 | |||
| aa | 133 | 1 | 0.992 | |||
| rs6855202 | AA | 59 | 15 | 0.797 | 3.33 × 10-13 | |
| Aa | 246 | 0 | 1.000 | |||
| aa | 141 | 0 | 1.000 | |||
pVal is the P value calculated by Fisher Exact Test to show whether the genotype counts called by the software provided by the respective platform (Obs.) were significantly different from the no-calls' counts by sequencing (Seq.). ci is the genotypic specific call-rate for AA, Aa and aa.