Polygenic Score (PGS) ID: PGS001315

Predicted Trait
Reported Trait Myocardial infarction
Mapped Trait(s) myocardial infarction (EFO_0000612)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/HC326
Released in PGS Catalog: Oct. 21, 2021
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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 GBE_HC326
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 1,788
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000244
Citation (link to publication) Tanigawa Y et al. PLoS Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
269,704 individuals (100%)
PGS Evaluation
European: 40%
African: 20%
East Asian: 20%
South Asian: 20%
5 Sample Sets

Development Samples

Score Development/Training
Study Identifiers Sample Numbers Sample Ancestry Cohort(s) Phenotype Definitions & Methods Age of Study Participants Participant Follow-up Time Additional Ancestry Description Additional Sample/Cohort Information
—
[
  • 11,152 cases
  • , 258,552 controls
]
 European UKB — — — white British ancestry —

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
PPM009068 PSS004447|
African Ancestry|
6,497 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Heart attack (MI) — AUROC: 0.69844 [0.6569, 0.73997] R²: 0.06159
Incremental AUROC (full-covars): -0.00208
PGS R2 (no covariates): 0.00235
PGS AUROC (no covariates): 0.54374 [0.49552, 0.59197]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM009069 PSS004448|
East Asian Ancestry|
1,704 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Heart attack (MI) — AUROC: 0.77737 [0.69516, 0.85958] R²: 0.12911
Incremental AUROC (full-covars): -0.00257
PGS R2 (no covariates): 0.00655
PGS AUROC (no covariates): 0.55983 [0.43749, 0.68218]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM009070 PSS004449|
European Ancestry|
24,905 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Heart attack (MI) — AUROC: 0.77933 [0.76476, 0.79391] R²: 0.13255
Incremental AUROC (full-covars): 0.00791
PGS R2 (no covariates): 0.0101
PGS AUROC (no covariates): 0.58124 [0.56203, 0.60045]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM009071 PSS004450|
South Asian Ancestry|
7,831 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Heart attack (MI) — AUROC: 0.76924 [0.75056, 0.78793] R²: 0.15526
Incremental AUROC (full-covars): 0.00484
PGS R2 (no covariates): 0.00641
PGS AUROC (no covariates): 0.55598 [0.53163, 0.58034]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM009072 PSS004451|
European Ancestry|
67,425 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Heart attack (MI) — AUROC: 0.75834 [0.74967, 0.76701] R²: 0.11912
Incremental AUROC (full-covars): 0.01051
PGS R2 (no covariates): 0.0122
PGS AUROC (no covariates): 0.58432 [0.57339, 0.59525]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method

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
PSS004447 — —
[
  • 149 cases
  • , 6,348 controls
]
 — African unspecified — UKB —
PSS004448 — —
[
  • 25 cases
  • , 1,679 controls
]
 — East Asian — UKB —
PSS004449 — —
[
  • 881 cases
  • , 24,024 controls
]
 — European non-white British ancestry UKB —
PSS004450 — —
[
  • 568 cases
  • , 7,263 controls
]
 — South Asian — UKB —
PSS004451 — —
[
  • 2,812 cases
  • , 64,613 controls
]
 — European white British ancestry UKB Testing cohort (heldout set)