Predicted Trait | |
Reported Trait | Type 2 Diabetes |
Mapped Trait(s) | type II diabetes mellitus (EFO_0001360) |
Score Construction | |
PGS Name | Qi_T2D_2017 |
Variants | |
Original Genome Build | NR |
Number of Variants | 80 |
Development Method | |
Name | GWAS-significant SNPs |
Parameters | Unweighted allele count |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000062 |
Citation (link to publication) | Qi Q et al. Diabetes (2017) |
Study Identifiers | Sample Numbers | Sample Ancestry |
---|---|---|
GWAS Catalog: GCST002317 EuropePMC: 24390345 |
8,214 individuals | Hispanic or Latin American |
GWAS Catalog: GCST002560 EuropePMC: 2510218 |
23,827 individuals | African American or Afro-Caribbean |
GWAS Catalog: GCST002352 EuropePMC: 2450948 |
2,583 individuals | Hispanic or Latin American |
GWAS Catalog: GCST002352 EuropePMC: 2450948 |
20,019 individuals | South Asian |
GWAS Catalog: GCST002352 EuropePMC: 2450948 |
69,033 individuals | European |
GWAS Catalog: GCST002352 EuropePMC: 2450948 |
18,817 individuals | East Asian |
GWAS Catalog: GCST002128 EuropePMC: 23945395 |
26,805 individuals | East Asian |
PGS Performance Metric ID (PPM ID) |
PGS Sample Set ID (PSS ID) |
Performance Source | Trait |
PGS Effect Sizes (per SD change) |
PGS Classification Metrics | Other Metrics | Covariates Included in the Model | PGS Performance: Other Relevant Information |
---|---|---|---|---|---|---|---|---|
PPM000404 | PSS000232 | PGP000062 Qi Q et al. (2017) | Reported Trait: Type 2 Diabetes | — | — | OR (Odds Ratio, per risk allele): 1.07 [1.06, 1.08] | center, age, sex, 5 PCs of ancestry | Covariance matrices corresponding to genetic relatedness (kinship), household, and census block group were included as random effects in the mixed model analysis |
PGS Sample Set ID (PSS ID) |
Phenotype Definitions and Methods | Participant Follow-up Time | Sample Numbers | Age of Study Participants | Sample Ancestry | Additional Ancestry Description | Cohort(s) | Additional Sample/Cohort Information |
---|---|---|---|---|---|---|---|---|
PSS000232 | Individuals with T2D were defined as those with fasting time >8 h and fasting glucose levels ≥126 mg/dL, fasting ≤8 h and fasting glucose ≥200 mg/dL, post–oral glucose tolerance test glucose ≥200 mg/dL, HbA1c ≥6.5% (48 mmol/mol), or on current treatment with antihyperglycemia medications. | — | [ ,
39.65 % Male samples |
— | Hispanic or Latin American (Central American, Cuban, Dominican, Mexican, Puerto Rican, South American) |
Ancestry groups were defined based on a combination of self-identified Hispanic/Latino background and genetic similarity | HCHS, SOL | — |