Polygenic Score (PGS) ID: PGS005091

Predicted Trait
Reported Trait Coronary artery disease
Mapped Trait(s) coronary artery disease (EFO_0001645)
Released in PGS Catalog: Nov. 21, 2024
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Terms and Licenses
PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name PGS_LDP2Auto
Development Method
Name LDPred2Auto
Parameters NR
Variants
Original Genome Build GRCh38
Number of Variants 1,428,772
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000684
Citation (link to publication) Abramowitz SA et al. JAMA (2024)
Ancestry Distribution
Source of Variant
Associations (GWAS)
Multi-ancestry (including European): 52.6%
  • European
  • Not Reported
European: 29.5%
East Asian: 13.1%
African: 3.5%
Hispanic or Latin American: 1.4%
2,216,963 individuals (100%)
PGS Evaluation
Multi-ancestry (including European): 100%
  • European
  • African
  • Hispanic or Latin American
  • South Asian
  • East Asian
  • Greater Middle Eastern
  • Not Reported
3 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST90132314
Europe PMC: 36474045
 1,165,690 individuals European, NR NR
PMID: 36653562
[
  • 47,550 cases
  • , 313,400 controls
]
 European FinnGen
PMID: 35915156
[
  • 95,151 cases
  • , 197,287 controls
]
 European MVP
PMID: 35915156
[
  • 6,378 cases
  • , 24,270 controls
]
 Hispanic or Latin American MVP
PMID: 35915156
[
  • 17,202 cases
  • , 59,507 controls
]
 African unspecified MVP
PMID: 37601966
[
  • 3,386 cases
  • , 74,689 controls
]
 East Asian CKB
PMID: 32514122
[
  • 29,319 cases
  • , 183,134 controls
]
 East Asian BBJ

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) 		PGS Sample Set ID
(PSS) 		Performance Source Trait PGS Effect Sizes
(per SD change) 		Classification Metrics Other Metrics Covariates Included in the Model PGS Performance:
Other Relevant Information
PPM022178 PSS011830|
Multi-ancestry (including European)|
171,095 individuals
 PGP000684 |
Abramowitz SA et al. JAMA (2024)
 Reported Trait: Prevalent coronary heart disease OR: 1.452 [1.427, 1.477] AUROC: 0.776 Brier score: 0.0825 Age, sex Scores in model are PCA-normalized
PPM022179 PSS011832|
Multi-ancestry (including European)|
53,092 individuals
 PGP000684 |
Abramowitz SA et al. JAMA (2024)
 Reported Trait: Prevalent coronary heart disease OR: 1.374 [1.343, 1.406] AUROC: 0.8 Brier score: 0.143 Age, sex, first 5 PCs Scores in model are PCA-normalized
PPM022180 PSS011831|
Multi-ancestry (including European)|
41,193 individuals
 PGP000684 |
Abramowitz SA et al. JAMA (2024)
 Reported Trait: Prevalent coronary heart disease OR: 1.547 [1.506, 1.59] AUROC: 0.791 Brier score: 0.1405 Age, sex Scores in model are PCA-normalized

Evaluated Samples

PGS Sample Set ID
(PSS) 		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
PSS011832 Chronic condition warehouse definitions for myocardial infarction and ischemic heart disease —
[
  • 8,137 cases
  • , 25,577 controls
]
 — European — UCLA —
PSS011832 Chronic condition warehouse definitions for myocardial infarction and ischemic heart disease —
[
  • 731 cases
  • , 1,951 controls
]
 — African unspecified — UCLA —
PSS011832 Chronic condition warehouse definitions for myocardial infarction and ischemic heart disease —
[
  • 1,510 cases
  • , 6,006 controls
]
 — Hispanic or Latin American — UCLA —
PSS011832 Chronic condition warehouse definitions for myocardial infarction and ischemic heart disease —
[
  • 967 cases
  • , 3,992 controls
]
 — East Asian — UCLA —
PSS011832 Chronic condition warehouse definitions for myocardial infarction and ischemic heart disease —
[
  • 168 cases
  • , 640 controls
]
 — South Asian — UCLA —
PSS011832 Chronic condition warehouse definitions for myocardial infarction and ischemic heart disease —
[
  • 999 cases
  • , 2,414 controls
]
 — Not reported — UCLA —
PSS011830 410, 411, 412, 413, 41, V45.81 (ICD-9), I21, I22, I24, Z95.1, Z98.61, I20.0 (ICD-10) —
[
  • 11,344 cases
  • , 89,149 controls
]
 — European — AllofUs —
PSS011830 410, 411, 412, 413, 41, V45.81 (ICD-9), I21, I22, I24, Z95.1, Z98.61, I20.0 (ICD-10) —
[
  • 3,558 cases
  • , 32,032 controls
]
 — African unspecified — AllofUs —
PSS011830 410, 411, 412, 413, 41, V45.81 (ICD-9), I21, I22, I24, Z95.1, Z98.61, I20.0 (ICD-10) —
[
  • 2,268 cases
  • , 27,533 controls
]
 — Hispanic or Latin American — AllofUs —
PSS011830 410, 411, 412, 413, 41, V45.81 (ICD-9), I21, I22, I24, Z95.1, Z98.61, I20.0 (ICD-10) —
[
  • 134 cases
  • , 1,612 controls
]
 — South Asian — AllofUs —
PSS011830 410, 411, 412, 413, 41, V45.81 (ICD-9), I21, I22, I24, Z95.1, Z98.61, I20.0 (ICD-10) —
[
  • 132 cases
  • , 1,865 controls
]
 — East Asian — AllofUs —
PSS011830 410, 411, 412, 413, 41, V45.81 (ICD-9), I21, I22, I24, Z95.1, Z98.61, I20.0 (ICD-10) —
[
  • 153 cases
  • , 1,315 controls
]
 — Greater Middle Eastern (Middle Eastern, North African or Persian) — AllofUs —
PSS011831 410, 411, 412, 413, 41, V45.81 (ICD-9), I21, I22, I24, Z95.1, Z98.61, I20.0 (ICD-10) —
[
  • 6,761 cases
  • , 21,323 controls
]
 — European — PMB —
PSS011831 410, 411, 412, 413, 41, V45.81 (ICD-9), I21, I22, I24, Z95.1, Z98.61, I20.0 (ICD-10) —
[
  • 1,932 cases
  • , 7,898 controls
]
 — African unspecified — PMB —
PSS011831 410, 411, 412, 413, 41, V45.81 (ICD-9), I21, I22, I24, Z95.1, Z98.61, I20.0 (ICD-10) —
[
  • 312 cases
  • , 1,565 controls
]
 — Hispanic or Latin American — PMB —
PSS011831 410, 411, 412, 413, 41, V45.81 (ICD-9), I21, I22, I24, Z95.1, Z98.61, I20.0 (ICD-10) —
[
  • 88 cases
  • , 462 controls
]
 — South Asian — PMB —
PSS011831 410, 411, 412, 413, 41, V45.81 (ICD-9), I21, I22, I24, Z95.1, Z98.61, I20.0 (ICD-10) —
[
  • 70 cases
  • , 514 controls
]
 — East Asian — PMB —
PSS011831 410, 411, 412, 413, 41, V45.81 (ICD-9), I21, I22, I24, Z95.1, Z98.61, I20.0 (ICD-10) —
[
  • 52 cases
  • , 216 controls
]
 — Greater Middle Eastern (Middle Eastern, North African or Persian) — PMB —