Predicted Trait | |
Reported Trait | Coronary heart disease |
Mapped Trait(s) | coronary artery disease (EFO_0001645) |
Score Construction | |
PGS Name | CHD57 |
Variants | |
Original Genome Build | hg19 |
Number of Variants | 57 |
Development Method | |
Name | Hard thresholding |
Parameters | Independent variants associated with CHD, with suitable proxies (r2 > 0.8) in the cohorts |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000042 |
Citation (link to publication) | Natarajan P et al. Circulation (2017) |
Study Identifiers | Sample Numbers | Sample Ancestry |
---|---|---|
EuropePMC: 26934567 | [
|
European |
GWAS Catalog: GCST003116 EuropePMC: 26343387 |
11,323 individuals | East Asian |
GWAS Catalog: GCST003116 EuropePMC: 26343387 |
25,557 individuals | South Asian |
GWAS Catalog: GCST003116 EuropePMC: 26343387 |
2,268 individuals | Greater Middle Eastern (Middle Eastern, North African or Persian) |
GWAS Catalog: GCST003116 EuropePMC: 26343387 |
4,095 individuals | Hispanic or Latin American |
GWAS Catalog: GCST003116 EuropePMC: 26343387 |
141,217 individuals | European |
GWAS Catalog: GCST003116 EuropePMC: 26343387 |
3,139 individuals | African American or Afro-Caribbean |
EuropePMC: 23202125 | [
|
European, South 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 |
---|---|---|---|---|---|---|---|---|
PPM000145 | PSS000090 | PGP000042 Natarajan P et al. (2017) | Reported Trait: Coronary artery calcification | OR: 1.32 [1.04, 1.68] | — | OR (highest vs. lowest quintile of PGS): 2.51 [1.08, 5.85] | age, sex, diabetes meliitus status, smoking status, LDL cholesterol, HDL cholesterol, systolic blood pressure, antihypertensive medication status, family history of CHD | — |
PPM000144 | PSS000091 | PGP000042 Natarajan P et al. (2017) | Reported Trait: Coronary heart disease (incident) | — | — | HR (highest vs. lowest quintile of PGS): 1.66 [1.21, 2.29] | age, sex, diabetes meliitus status, smoking status, LDL cholesterol, HDL cholesterol, systolic blood pressure, antihypertensive medication status, family history of CHD | — |
PPM000146 | PSS000089 | PGP000042 Natarajan P et al. (2017) | Reported Trait: Carotid artery plaque burden | β: 1.097 [1.022, 1.178] | — | — | age, sex, diabetes meliitus status, smoking status, LDL cholesterol, HDL cholesterol, systolic blood pressure, antihypertensive medication status, family history of CHD | — |
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 |
---|---|---|---|---|---|---|---|---|
PSS000089 | Total carotid plaque burden (mm2) | — | 4,392 individuals | Range = [55.0, 80.0] years | NR | — | BioImage | — |
PSS000090 | Total coronary arterial clacification (CAC) was coded as a a dichotomous outcome variable (CAC>0 versus CAC=0), and quantified by the Agatston method | Mean = 15.0 years | 1,154 individuals | Range = [32.0, 47.0] years | NR | — | CARDIA | — |
PSS000091 | Nonfatal myocardial infarction or death from CHD | Mean = 13.5 years Sd = 2.8 years |
2,440 individuals, 100.0 % Male samples |
Mean = 55.1 years Sd = 5.5 years |
NR | — | Participants were all men hypercholesterolemia but without a history of myocardial infarction, allocated to the placebo group |