Table 1.
Glutamatergic Candidate Genes
| Chromosome | HapMap SNPs | Test SNPs | Captured SNPs | Coverage | r2 mean | |
|---|---|---|---|---|---|---|
|
| ||||||
| Gene Name | n | n | n | % | ||
| GRIN2B | 12 | 523 | 143(145) | 421 | 85% | 0.961 |
| DLGAP3 | 1 | 22 | 10 | 14 | 63% | 0.988 |
| SLC1A1 | 9 | 149 | 60 (62) | 113 | 79% | 0.973 |
| GRIK2 | 6 | 671 | 121(124) | 530 | 78% | 0.963 |
| GRIK3 | 1 | 183 | 21 | 101 | 55% | 0.973 |
| SLITRK5* | 13 | 10 | 2 | 5 | 50% | 0.981 |
| SLITRK1 | 13 | 2 | 1 | 1 | 50% | 1 |
| DLGAP1 | 18 | 285 | 96 | 226 | 79% | 0.960 |
| DLGAP2 | 8 | 223 | 58 | 195 | 87% | 0.958 |
HapMap SNPs: number of SNPs in the HapMap release 28 for each gene (up to 10kb flanking regions included).
Test SNPs: number of test SNPs used in the tagging algorithm (performed by using forced-include function in Haploview). Bracket indicates the number of actual SNPs used in this study due to some additional SNPs on the ChIP not genotyped in the HapMap sample.
Captured SNPs & Coverage: number and percentage of HapMap SNPs tagged by the test SNPs with an r2 > 0.75
r2 mean: average r2 between test SNPs and tagged HapMap SNPs
*
These 2 SNPs are located in the intergenic regions of SLITRK5, the SLTRK5 region was extended to include these 2 SNPs for the tagger algorithm