Polygenic Score (PGS) ID: PGS000337

Predicted Trait
Reported Trait Coronary artery disease
Mapped Trait(s) coronary artery disease (EFO_0001645)
Released in PGS: Nov. 5, 2020
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Terms and Licenses
The use of data is limited for research purposes only. Identification of individuals is prohibited. The hum0014-v20 accession number should be cited in public publications and presentations.

Score Details

Score Construction
PGS Name MetaPRS_CAD
Variants
Original Genome Build hg19
Number of Variants 75,028
Development Method
Name P-value thresholding
Parameters p < 5e-2, r2 < 0.8
PGS Source
PGS Catalog Publication (PGP) ID PGP000104
Citation (link to publication) Koyama S et al. Nat Genet (2020)

Contributing Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry
EuropePMC: 33020668.0
[
  • 25,892 cases
  • , 142,336 controls
]
,
53.63 % Male samples
East Asian
(Japanese)
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
GWAS Catalog: GCST005194
EuropePMC: 29212778
296,525 individuals NR

Performance Metrics

Disclaimer: The performance metrics are displayed as reported by the source studies. It is important to note that metrics are not necessarily comparable with each other. For example, metrics depend on the sample characteristics (described by the PGS Catalog Sample Set [PSS] ID), phenotyping, and statistical modelling. Please refer to the source publication for additional guidance on performance.

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
PPM000909 PSS000456 PGP000104
Koyama S et al. (2020)
Reported Trait: Mortality (diseases of the circulatory system) HR: 1.10351[1.057, 1.152] Sex, age, age^2, PCs (1-10), disease status
PPM000908 PSS000454 PGP000104
Koyama S et al. (2020)
Reported Trait: All-cause Mortality HR: 1.03159[1.011, 1.052] Sex, age, age^2, PCs (1-10), disease status
PPM000911 PSS000457 PGP000104
Koyama S et al. (2020)
Reported Trait: Mortality (ischemic heart disease) HR: 1.2158[1.109, 1.333] Sex, age, age^2, PCs (1-10), disease status
PPM000912 PSS000455 PGP000104
Koyama S et al. (2020)
Reported Trait: Mortality (congestive heart failure) HR: 1.15604[1.042, 1.2283] Sex, age, age^2, PCs (1-10), disease status
PPM000910 PSS000458 PGP000104
Koyama S et al. (2020)
Reported Trait: Mortality (diseases of the respiratory system) HR: 1.07133[1.012, 1.134] Sex, age, age^2, PCs (1-10), disease status
PPM000907 PSS000459 PGP000104
Koyama S et al. (2020)
Reported Trait: Coronary artery disease OR: 1.84[1.744, 1.943] AUROC: 0.674[0.661, 0.687] : 0.087[0.074, 0.101]

Evaluated Samples

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
PSS000454 Cause of death under ICD-10 code Median = 7.7 years
[
  • 9,816 cases
  • , 39,414 controls
]
East Asian
(Japanese)
BBJ
PSS000455 Cause of death under ICD-10.CHF code Median = 7.7 years
[
  • 362 cases
  • , 48,868 controls
]
East Asian
(Japanese)
BBJ
PSS000456 Cause of death under ICD-10.I codes Median = 7.7 years
[
  • 2,122 cases
  • , 47,108 controls
]
East Asian
(Japanese)
BBJ
PSS000457 Cause of death under ICD-10.IHD code Median = 7.7 years
[
  • 464 cases
  • , 48,766 controls
]
East Asian
(Japanese)
BBJ
PSS000458 Cause of death under ICD-10.J codes Median = 7.7 years
[
  • 1,193 cases
  • , 48,037 controls
]
East Asian
(Japanese)
BBJ
PSS000459 CAD was defined as a composite of stable angina, unstable angina and myocardial infarction. The disease definitions are dependent on the physician's diagnosis based on general medical practices following relevant guidelines and according to the clinical symptoms and diagnotic tests.
[
  • 1,827 cases
  • , 9,172 controls
]
,
84.0 % Male samples
East Asian
(Japanese)
BBJ