qPCR validation of gene expression and SNP-gene correlation
| Gene | eQTLs association | Probe | SNPs | Correlation with microarray data | Microarray data with SNPs | qPCR data with SNPs | Independent sample set (n=54) | ||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| β | p Value | β | p Value | β | p Value | β | p Value | ||||
| DDT | cis | A_23_P17769 | rs1006771 | 0.98 | 1.90E-18 | 0.67 | 3.11E-25 | 0.45 | 6.97E-14 | 0.58 | 7.4E-03 |
| MRPL43 | cis | A_23_P382154 | rs3824783 | 0.81 | 1.69E-07 | −1.16 | 3.59E-24 | −0.64 | 2.61E-02 | −1.21 | 9.01E-09 |
| ERAP2 | cis | A_23_P30243 | rs10434709 | 1.12 | 2.91E-31 | 2.35 | 8.41E-26 | 1.80 | 3.02E-20 | −2.06 | 1.76E-09 |
| FADS1 | cis | A_24_P192994 | rs174547 | 0.81 | 4.36E-13 | −1.27 | 7.87E-09 | −1.13 | 5.83e-07 | −1.04 | 5.02E-06 |
| BRCA1 | cis | A_23_P207400 | rs9911630 | 1.08 | 6.28e-09 | −0.84 | 6.61E-11 | −0.79 | 0.00135 | −0.52 | 6.19E-03 |
| CCND2 | trans | A_24_P270235 | rs1404608 | 0.71 | 4.77E-04 | 0.38 | 8.97E-11 | 0.12 | 3.80E-01 | −0.13 | 0.53 |
| PTPRE | trans | A_23_P138495 | rs1463389 | 2.17 | 3.04E-06 | 0.34 | 3.03E-10 | 0.50 | 3.07E-02 | −0.53 | 0.41 |
eQTLs, expression quantitative trait loci; SNPs, single nucleotide polymorphisms; qPCR, quantitative PCR .