Table 6. Numbers of loci with colocalization.
LDL, HDL and TG. For the methods testing each locus, α = 0.05/#loci. For the marginal method that tests each SNP separately, the numbers are the numbers of significant SNPs, and α = 0.05/(#SNPs in "Marginal"). For testing lead SNPs, α = 0.05/(#SNPs in "Regional").
| Chr | Marginal | Regional | ||||||
|---|---|---|---|---|---|---|---|---|
| # SNPs | # Significant SNPs | # Loci | # SNPs | # Loci with Colocalization | # Significant Lead SNPs* | |||
| CB | CMC | MA | ||||||
| 1 | 181434 | 6 | 26 | 134 | 6 | 6 | 7 | 4/4 |
| 2 | 209518 | 70 | 33 | 230 | 11 | 11 | 12 | 5/9 |
| 11 | 124669 | 125 | 26 | 239 | 22 | 23 | 23 | 20/21 |
| 12 | 116372 | 0 | 2 | 17 | 1 | 1 | 1 | 0/1 |
| 16 | 67080 | 28 | 5 | 40 | 1 | 1 | 1 | 0/0 |
| 19 | 33311 | 16 | 21 | 81 | 5 | 5 | 6 | 5/3 |
| 20 | 58830 | 0 | 6 | 45 | 1 | 1 | 1 | 0/1 |
* Lead SNPs were defined as the ones with the smallest p-values for LDL / smallest p-value sums for LDL + HDL + TG. These p-values were obtained from the conditional models.