Table 1.
Pleiotropic Loci Associated With Both FN BMD and BMI/WHR With cFDR <0.05
| Characteristic | rs3759579 | rs2178950 | rs1473 | rs9825174 | rs2047937 | rs17277372 | rs335170 |
|---|---|---|---|---|---|---|---|
| Gene | MARK3 | TRPS1 | PUM1 | XXYLT1 | ZNF423 | DNM3 | PRDM6 |
| Chromosome | 14q32.32 | 8q24.12 | 1p35.2 | 3q29 | 16q12 | 1q24.3 | 5q23.2 |
| A1 | A | C | A | C | C | A | A |
| A2 | G | G | G | T | T | G | C |
| P value BMI | 2.18E-05 | 8.86E-04 | 4.89E-04 | 7.13E-04 | / | / | / |
| P value WHR | / | / | / | / | 3.80E-04 | 1.60E-03 | 2.20E-03 |
| P value FN BMD | 3.31E-05 | 3.95E-04 | 2.67E-04 | 2.50E-04 | 2.10E-07 | 7.80E-07 | 1.80E-05 |
| Effect for BMI | − | − | + | − | / | / | / |
| Effect for WHR | / | / | / | / | − | + | + |
| Effect for FN BMD | − | + | + | − | + | − | − |
| cFDR BMI|FN BMD | 7.43E-04 | 3.06E-02 | 2.66E-02 | 3.64E-02 | / | / | / |
| cFDR FN BMD|BMI | 3.54E-03 | 4.08E-02 | 4.33E-02 | 4.78E-02 | / | / | / |
| cFDR WHR|FN BMD | / | / | / | / | 1.14E-03 | 6.40E-03 | 1.91E-02 |
| cFDR FN BMD|WHR | / | / | / | / | 2.21E-05 | 1.01E-04 | 1.96E-03 |
| ccFDR | 3.54E-03 | 4.08E-02 | 4.33E-02 | 4.78E-02 | 1.14E-03 | 6.40E-03 | 1.91E-02 |
Independent gene loci (r2 < 0.2) with SNPs that have ccFDR <0.05 in FN BMD and BMI/FN BMD and WHR. All SNPs are listed with their nearest gene(s), chromosomal location, effect allele A1, noneffect allele A2, raw P values for univariate GWAS for each trait, cFDR values for each trait, and ccFDR values. The effect direction of the potentially pleiotropic SNP on FN BMD and BMI/WHR was obtained from the original GWAS data. The effect represents the summary of effect directions (“+” indicates positive effect of A1 allele, “−” indicates negative effect of the A1 allele, and “/” indicates there is no value for the column).