Table 6 List of differentially regulated genes as determined by GTEx data analysis on variants associated with metabolic traits.
From: Genetic risk variants for metabolic traits in Arab populations
SNP | Gene mapped | Gene regulated | P-value | Effect Size | Regulation | Tissue |
|---|---|---|---|---|---|---|
I. Markers associated at close to genome-wide significant p-value of ≤3.41E-08 | ||||||
Chr15:40531386-rs12440118 | ZNF106 (W > R) | LRRC57 (downstream of ZNF106) | 3.7E-09 | −0.47 | Down | Cells- transformed fibroblast |
II. Markers with nominal evidence of association at p-value ≤ 5.45E-07 | ||||||
rs11143005 | LOC105376072 (intronic) | LOC105376072 (intronic) | 3.3E-08 | 0.23 | Up | Whole Blood |
rs11143005 | LOC105376072 (intronic) | PGM5 (downstream of LOC105376072) | 4.2E-10 | 0.50 | Up | Whole Blood |
III. Markers with suggestive evidence of association at p-value < 1.0E-05 | ||||||
rs1800775 | CETP (SNP located downstream of the gene) | NLRC5 (Upstream of CETP) | 4.3E-16 | −0.35 | Down | Cells- transformed fibroblast |
rs9326246 | BUD13 (SNP located upstream of the gene) | RP11-109L13.1 (downstream of BUD13) | 4.8E-07 | −0.80 | Down | Skin- Sun exposed |
rs17716285 | KSR1 (intronic) | NOS2 (upstream of KSR1) | 0.0000051 | 0.46 | Up | Muscle skeletal |
rs11777524 | LY6D, GML (intergenic) | LOC101928087 (upstream of LY6D) | 0.0000041 | −0.80 | Down | Testis |
rs10497520 | TTN (K > E) | FKBP7 (upstream of TTN) | 0.000019 | −0.19 | Down | Cells- transformed fibroblast |
