Polygenic Score (PGS) ID: PGS001412

Predicted Trait
Reported Trait LV ejection fraction
Mapped Trait(s) left ventricular ejection fraction measurement (EFO_0008373)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI22420
Released in PGS Catalog: Nov. 25, 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_INI22420
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 266
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%
22,239 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
— 22,239 individuals European UKB — — — white British ancestry Training + validation cohort (train_val)

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
PPM005316 PSS004987|
East Asian Ancestry|
110 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: LV ejection fraction — — R²: 0.21638 [0.18183, 0.25092]
Incremental R2 (full-covars): 0.00243
PGS R2 (no covariates): 0.0051 [-0.00163, 0.01183]		 age, sex, UKB array type, Genotype PCs —
PPM005317 PSS004988|
European Ancestry|
1,708 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: LV ejection fraction — — R²: 0.07182 [0.06564, 0.07799]
Incremental R2 (full-covars): 0.0014
PGS R2 (no covariates): 0.00189 [0.00081, 0.00297]		 age, sex, UKB array type, Genotype PCs —
PPM005315 PSS004986|
African Ancestry|
192 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: LV ejection fraction — — R²: 0.07902 [0.06643, 0.0916]
Incremental R2 (full-covars): 0.0065
PGS R2 (no covariates): 0.00921 [0.00459, 0.01383]		 age, sex, UKB array type, Genotype PCs —
PPM005318 PSS004989|
South Asian Ancestry|
319 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: LV ejection fraction — — R²: 0.06719 [0.05648, 0.07789]
Incremental R2 (full-covars): 0.00348
PGS R2 (no covariates): 0.00252 [0.00031, 0.00474]		 age, sex, UKB array type, Genotype PCs —
PPM005319 PSS004990|
European Ancestry|
5,528 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: LV ejection fraction — — R²: 0.04862 [0.04545, 0.05179]
Incremental R2 (full-covars): 0.00384
PGS R2 (no covariates): 0.00375 [0.00283, 0.00468]		 age, sex, UKB array type, Genotype PCs —

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
PSS004988 — — 1,708 individuals — European non-white British ancestry UKB —
PSS004989 — — 319 individuals — South Asian — UKB —
PSS004990 — — 5,528 individuals — European white British ancestry UKB Testing cohort (heldout set)
PSS004986 — — 192 individuals — African unspecified — UKB —
PSS004987 — — 110 individuals — East Asian — UKB —