Table 1.
Clusters of colocalized traits identified by the main and secondary analyses at recommended settings
| Main analysis | Secondary analysis | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Locus | Candidate LD (R2)§ | Colocalized traits | PPcoloc* | Candidate variant | PPexplained | N variants | Colocalized traits | PPcoloc* | Candidate variant | PPexplained | N variants |
| GIPR | 1 | LDL, CAD, total cholesterol, lipoprotein A, apoB | 1 | rs7412 | 1 | 418 | LDL, CAD, total cholesterol, lipoprotein A, apoB | 1 | rs7412 | 1 | 4,996 |
| GIPR | 0.69 | HbA1c, apoA1, WHRadjBMI, waist circumference adjBMI, WHR | 0.99 | rs4420638 | 1 | 418 | HbA1c, HDL, apoA1, WHRadjBMI, waist circumference adjBMI, WHR | 0.97 | rs429358 | 1 | 4,996 |
| GIPR | 1 | GIP SOMAmer 16292-288, fasting GIP, 2-h GIP, BMI, glucose, hip circumference, waist circumference, 2-h glucose adjBMI | 0.97 | rs1800437 | 1 | 418 | SOMAmer 16292-288, hip circumference, 2-h glucose adjBMI | 0.91 | rs1800437 | 0.68 | 4,996 |
| GIPR | NA | BMI, waist circumference | 1 | rs1800437 | 1 | 4,996 | |||||
| GIPR | NA | T2D, T2D adjBMI | 0.98 | rs8108269 | 0.99 | 418 | |||||
| GIPR | NA | Triglycerides, hip circumference adjBMI | 0.98 | rs5117 | 0.93 | 4,996 | |||||
Blank rows for either analysis indicate a cluster not identified in the respective analysis. adj, adjusted for; GIPR, glucose-dependent insulinotropic polypeptide receptor; glucose, nonfasting glucose; NA, not applicable; variants, single nucleotide polymorphisms.
*
Trait clusters are reported at the recommended thresholds for HyPrColoc: prior 2 = 0.02; regional and alignment thresholds = 0.9.
§
The LD in R2 between the candidate variants for the main and secondary analyses, respectively.