Table 4.
Significant results from the QTL mapping in Hispanics/Latinos from GALA II (2006–2014)
| Puerto Ricans | Mexican Americans | Meta-analysisa | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
|
||||||||||||
| SNP - analysis | Target | Positionb | Gene | Coef (SE) | p-value | PQ | Coef (SE) | p-value | PQ | Coef (SE) | p-value | Q |
|
| ||||||||||||
| rs1144986 -meQTL | cg04833034 | 147452619 | DPYSL3 | 0.18 (0.04) | 1.58×10−5 | 0.66 | 0.11 (0.07) | 1.28×10−1 | NAc | 0.16 (0.04) | 6.36×10−6 | 8.13×10−4 |
|
| ||||||||||||
| cg09639133 | 147451646 | DPYSL3 | 0.22 (0.05) | 5.10×10−5 | 0.53 | 0.14 (0.07) | 5.25×10−2 | NAc | 0.19 (0.04) | 1.13×10−5 | 8.13×10−4 | |
|
| ||||||||||||
| cg10930901 | 147505871 | DPYSL3 | −0.18 (0.05) | 7.96×10−5 | 0.26 | −0.05 (0.07) | 4.56×10−1 | NAc | −0.14 (0.04) | 1.84×10−4 | 8.79×10−3 | |
|
| ||||||||||||
| cg01112778 | 147081424 | PPP2R2B | 0.14 (0.05) | 4.41×10−3 | 0.53 | 0.17 (0.09) | 5.29×10−2 | NAc | 0.15 (0.04) | 5.56×10−4 | 2.03×10−2 | |
|
| ||||||||||||
| cg24686270 | 147901750 | C5orf46 | 0.10 (0.03) | 4.25×10−3 | 0.47 | 0.10 (0.06) | 1.21×10−1 | NAc | 0.10 (0.04) | 1.04×10−4 | 2.98×10−2 | |
|
| ||||||||||||
| rs1144986 - eQTL | ENSG00000164265 | 147870682 | SCGB3A2 | 0.68 (0.08) | 1.01×10−15 | NA | 0.47 (0.10) | 1.85×10−6 | NA | 0.60 (0.06) | 6.12×10−21 | 3.06×10−20 |
a
A fixed effect model was applied since no heterogeneity was found between populations (Cochran’s Q p-value>0.05).
b
Chromosomal positions referred to the genome assembly GRCh38. For CpG sites, the location of the CpG is stated. For genes, the location of the transcription start site is shown.
c
The SNP did not meet the genotype inclusion criteria for the individuals profiled with the EPIC array.
d
The CpG was not available in the 450K array.
Abbreviations PQ: Cochran’s Q-test p-value; Coef: Regression coefficient estimate; NA: Not available/applicable; Q: Q-value; SE: Standard error of the regression coefficient estimate.