Polygenic Score (PGS) ID: PGS001375

Predicted Trait
Reported Trait Average heart rate
Mapped Trait(s) heart rate (EFO_0004326)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI22426
Released in PGS Catalog: Nov. 25, 2021
Download Score FTP directory
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_INI22426
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 243
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000244
Citation (link to publication) Tanigawa Y et al. medRxiv (2021) Preprint
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
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
22,239 individuals European white British ancestry UKB 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
PPM005325 PSS004996|
African Ancestry|
192 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ave. heart rate : 0.06508 [0.05349, 0.07667]
Incremental R2 (full-covars): 0.00545
PGS R2 (no covariates): 0.00196 [-0.00019, 0.00411]
age, sex, UKB array type, Genotype PCs
PPM005326 PSS004997|
East Asian Ancestry|
110 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ave. heart rate : 0.10436 [0.07694, 0.13177]
Incremental R2 (full-covars): -0.00244
PGS R2 (no covariates): 0.00402 [-0.00196, 0.01001]
age, sex, UKB array type, Genotype PCs
PPM005327 PSS004998|
European Ancestry|
1,708 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ave. heart rate : 0.02859 [0.02451, 0.03267]
Incremental R2 (full-covars): 0.00535
PGS R2 (no covariates): 0.0045 [0.00284, 0.00616]
age, sex, UKB array type, Genotype PCs
PPM005328 PSS004999|
South Asian Ancestry|
319 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ave. heart rate : 0.05234 [0.04274, 0.06194]
Incremental R2 (full-covars): 0.00014
PGS R2 (no covariates): 0.00114 [-0.00035, 0.00263]
age, sex, UKB array type, Genotype PCs
PPM005329 PSS005000|
European Ancestry|
5,528 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Ave. heart rate : 0.01988 [0.01779, 0.02196]
Incremental R2 (full-covars): 0.00417
PGS R2 (no covariates): 0.00374 [0.00282, 0.00466]
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
PSS004996 192 individuals African unspecified UKB
PSS004997 110 individuals East Asian UKB
PSS004998 1,708 individuals European non-white British ancestry UKB
PSS004999 319 individuals South Asian UKB
PSS005000 5,528 individuals European white British ancestry UKB Testing cohort (heldout set)