TABLE 2.
Survey for genetic predictors of HDL-cholesterol before and after treatment with three commonly used statin drugs (atorvastatin, simvastatin, pravastatin). Data were obtained in the context of clinical treatment trials.
| SNP | Posterior Probability | P-value | MAF | Chr. | Nearest Genes | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| H0 | HS | HD | H(S+D) | Sum | Diff | Gene Symbols (Distance from variant, kb) | |||||
| strong association* | |||||||||||
| rs247616 | <0.01 | 0.99 | <0.01 | <0.01 | 2.50E | 0.45 | 0.32 | 16 | CETP (6) | HERPUD1 (12) | SLC12A3 (42) |
| rs4775041 | <0.01 | 0.99 | <0.01 | <0.01 | 1.00E | 0.86 | 0.25 | 15 | LIPC (49) | LOC441726 (181) | AQP9 (197) |
| rs1011685 | <0.01 | 0.98 | <0.01 | 0.01 | 2.10E | 0.58 | 0.12 | 8 | LPL (6) | INTS10 (121) | SLC18A1 (172) |
| moderate association** | |||||||||||
| rs10091038 | 0.67 | 0.32 | <0.01 | 0.01 | 2.80E-06 | 0.18 | 0.43 | 8 | LOC646909(129) | DUSP4 (152) | KIF13B (240) |
| rs10123041 | 0.81 | 0.18 | <0.01 | <0.01 | 5.90E-06 | 0.96 | 0.16 | 9 | SLC28A3 (0) | RMII (303) | LOC729388 (325) |
| rs1535 | 0.83 | 0.17 | <0.01 | <0.01 | 6.80E-06 | 0.56 | 0.32 | 11 | FADS2 (0) | FADS1 (14) | FEN (33) |
| rs11641231 | 0.85 | 0.14 | <0.01 | 0.01 | 8.30E-06 | 0.07 | 0.23 | 16 | LOC401864 (87) | LOC283904 (140) | LOC729464 (148) |
| rs16839962 | 0.86 | 0.13 | <0.01 | <0.01 | 8.70E-06 | 0.48 | 0.13 | 2 | NR4A2 (256) | GPD2 (355) | LOC728038 (367) |
| rs1431315 | 0.88 | 0.11 | <0.01 | <0.01 | 1.20E-05 | 0.41 | 0.11 | 17 | ANKFN1 (80) | PCTP (297) | TMEM100 (351) |
H0: null model; HS: sum model; HD: difference model; H(S+D): sum and difference model.
*
Variants associated with HDL-cholesterol shown with posterior probablity less than 0.50 for association based on the null hypothesis.
**
Variants associated with HDL-cholesterol shown with posterior probablity between 0.50 and 0.89 for association based on the null hypothesis.
Adapted and reprinted with Permission from PLOS One 2010 (Barber, et. al. 2010) [reference 49].