Polygenic Score (PGS) ID: PGS001048

Predicted Trait
Reported Trait NSTEMI (algorithmically-defined)
Mapped Trait(s) Non-ST Elevation Myocardial Infarction (EFO_0008586)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/HC1576
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_HC1576
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 687
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
—
[
  • 3,842 cases
  • , 265,862 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
PPM007998 PSS004287|
African Ancestry|
6,497 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: AD NSTEMI — AUROC: 0.65512 [0.5866, 0.72364] R²: 0.02925
Incremental AUROC (full-covars): 0.00342
PGS R2 (no covariates): 0.00035
PGS AUROC (no covariates): 0.50799 [0.43141, 0.58457]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007999 PSS004288|
East Asian Ancestry|
1,704 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: AD NSTEMI — AUROC: 0.79982 [0.67861, 0.92103] R²: 0.1062
Incremental AUROC (full-covars): -0.01024
PGS R2 (no covariates): 0.00383
PGS AUROC (no covariates): 0.43146 [0.20864, 0.65427]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008000 PSS004289|
European Ancestry|
24,905 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: AD NSTEMI — AUROC: 0.7508 [0.72681, 0.77479] R²: 0.07667
Incremental AUROC (full-covars): 0.00242
PGS R2 (no covariates): 0.00192
PGS AUROC (no covariates): 0.53573 [0.50331, 0.56815]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008001 PSS004290|
South Asian Ancestry|
7,831 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: AD NSTEMI — AUROC: 0.73853 [0.70755, 0.76951] R²: 0.08258
Incremental AUROC (full-covars): -0.0018
PGS R2 (no covariates): 0.00033
PGS AUROC (no covariates): 0.5125 [0.47119, 0.55382]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008002 PSS004291|
European Ancestry|
67,425 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: AD NSTEMI — AUROC: 0.72145 [0.70591, 0.73699] R²: 0.06213
Incremental AUROC (full-covars): 0.004
PGS R2 (no covariates): 0.00234
PGS AUROC (no covariates): 0.54042 [0.52208, 0.55876]		 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
PSS004287 — —
[
  • 51 cases
  • , 6,446 controls
]
 — African unspecified — UKB —
PSS004288 — —
[
  • 8 cases
  • , 1,696 controls
]
 — East Asian — UKB —
PSS004289 — —
[
  • 309 cases
  • , 24,596 controls
]
 — European non-white British ancestry UKB —
PSS004290 — —
[
  • 195 cases
  • , 7,636 controls
]
 — South Asian — UKB —
PSS004291 — —
[
  • 932 cases
  • , 66,493 controls
]
 — European white British ancestry UKB Testing cohort (heldout set)