Polygenic Score (PGS) ID: PGS003356

Predicted Trait
Reported Trait Coronary artery disease
Mapped Trait(s) coronary artery disease (EFO_0001645)
Released in PGS Catalog: Dec. 20, 2022
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Score Details

Score Construction
PGS Name 1MH_CAD_PRS_2022_Ldpred
Development Method
Name LDpred
Parameters LD panel = 503 European ancestry individuals from 1000 Genomes; v.1.0
Variants
Original Genome Build GRCh37
Number of Variants 2,324,683
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000409
Citation (link to publication) Aragam KG et al. Nat Genet (2022)
Ancestry Distribution
Source of Variant
Associations (GWAS)
Multi-ancestry (including European): 100%
  • European
  • Not Reported
1,165,690 individuals (100%)
PGS Evaluation
European: 50%
Not Reported: 25%
African: 25%
4 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 12 cohorts
  • CARDIoGRAMplusC4D
  • ,ENGAGE_AF-TIMI_48
  • ,EPIC_CAD
  • ,GCC
  • ,GerMIFS
  • ,HUNT
  • ,MGBB
  • ,PEGASUS-TIMI_54
  • ,SAVOR-TIMI_53
  • ,TEENAGE
  • ,UKB
  • ,deCODE

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
PPM016211 PSS010059|
European Ancestry|
14,298 individuals
 PGP000409 |
Aragam KG et al. Nat Genet (2022)
 Reported Trait: Recurrent coronary artery disease HR: 1.2 [1.11, 1.29] — — age, sex and ancestry (PCs 1-5) —
PPM016208 PSS010060|
Ancestry Not Reported|
5,685 individuals
 PGP000409 |
Aragam KG et al. Nat Genet (2022)
 Reported Trait: Incident coronary artery disease HR: 1.61 [1.5, 1.72] — — age, sex and ancestry (PCs 1-5) —
PPM016209 PSS010060|
Ancestry Not Reported|
5,685 individuals
 PGP000409 |
Aragam KG et al. Nat Genet (2022)
 Reported Trait: Incident coronary artery disease HR: 1.54 — — age, sex and ancestry (PCs 1–5), established risk factors for CAD (total cholesterol, HDL cholesterol, systolic blood pressure, body mass index, type 2 diabetes, current smoking status and family history of CAD) —
PPM020882 PSS011442|
European Ancestry|
564 individuals
 PGP000599 |
Guarischi-Sousa R et al. Circ Genom Precis Med (2023)
|Ext.		 Reported Trait: Raised coronary lesion OR: 1.44 [1.18, 1.76] — — — —
PPM020897 PSS011441|
African Ancestry|
504 individuals
 PGP000599 |
Guarischi-Sousa R et al. Circ Genom Precis Med (2023)
|Ext.		 Reported Trait: Raised coronary lesion OR: 1.0 [0.81, 1.24] — — — —

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
PSS010060 —
[
  • 815 cases
  • , 4,870 controls
]
,
41.0 % Male samples
 — Not reported — MDC —
PSS011441 — —
[
  • 165 cases
  • , 339 controls
]
,
82.0 % Male samples
 Mean = 27.5 years African unspecified — PDAY —
PSS011442 — —
[
  • 181 cases
  • , 383 controls
]
,
77.0 % Male samples
 Mean = 26.7 years European — PDAY —
PSS010059 — Median = 2.3 years
[
  • 673 cases
  • , 13,625 controls
]
 — European — FOURIER —