Polygenic Score (PGS) ID: PGS003550

Predicted Trait
Reported Trait Pulse rate, automated reading
Mapped Trait(s) heart rate (OBA_1001087)
Released in PGS Catalog: April 12, 2023
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Score Details

Score Construction
PGS Name cont-decay-log_pulse_rate
Development Method
Name LDpred2-auto
Parameters vec_p_init = seq_log(1e-4, 0.9, length.out = 10), burn_in = 100, num_iter = 500, report_step = 5
Variants
Original Genome Build GRCh37
Number of Variants 979,739
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000457
Citation (link to publication) Ding Y et al. bioRxiv (2022) Preprint
Ancestry Distribution
Score Development/Training
European: 100%
346,303 individuals (100%)
PGS Evaluation
European: 44.4%
African: 22.2%
East Asian: 11.1%
Greater Middle Eastern: 11.1%
South Asian: 11.1%
9 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
— 346,303 individuals,
0.46 % Male samples
 European UKB — Mean = 56.9 years
Sd = 8.0 years		 — white British —

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
PPM017478 PSS010916|
European Ancestry|
18,679 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Pulse rate, automated reading — — partial-R2: 0.08 sex, age, deprivation index, PC1-16 —
PPM017562 PSS010832|
European Ancestry|
3,920 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Pulse rate, automated reading — — partial-R2: 0.06 sex, age, deprivation index, PC1-16 —
PPM017646 PSS010664|
European Ancestry|
6,182 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Pulse rate, automated reading — — partial-R2: 0.07 sex, age, deprivation index, PC1-16 —
PPM017730 PSS010580|
Greater Middle Eastern Ancestry|
1,122 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Pulse rate, automated reading — — partial-R2: 0.08 sex, age, deprivation index, PC1-16 —
PPM017814 PSS010244|
European Ancestry|
2,194 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Pulse rate, automated reading — — partial-R2: 0.07 sex, age, deprivation index, PC1-16 —
PPM017898 PSS010496|
South Asian Ancestry|
6,050 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Pulse rate, automated reading — — partial-R2: 0.06 sex, age, deprivation index, PC1-16 —
PPM017982 PSS010412|
East Asian Ancestry|
1,709 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Pulse rate, automated reading — — partial-R2: 0.04 sex, age, deprivation index, PC1-16 —
PPM018066 PSS010328|
African Ancestry|
2,424 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Pulse rate, automated reading — — partial-R2: 0.02 sex, age, deprivation index, PC1-16 —
PPM018150 PSS010748|
African Ancestry|
3,819 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Pulse rate, automated reading — — partial-R2: 0.02 sex, age, deprivation index, PC1-16 —

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
PSS010496 — — 6,050 individuals,
54.0 % Male samples
 Mean = 53.4 years
Sd = 8.4 years		 South Asian Indian UKB —
PSS010244 — — 2,194 individuals,
45.0 % Male samples
 Mean = 58.0 years
Sd = 7.1 years		 European Ashkenazi UKB —
PSS010916 — — 18,679 individuals,
46.0 % Male samples
 Mean = 56.9 years
Sd = 7.9 years		 European white British UKB —
PSS010664 — — 6,182 individuals,
45.0 % Male samples
 Mean = 54.5 years
Sd = 8.4 years		 European Italian UKB —
PSS010412 — — 1,709 individuals,
33.0 % Male samples
 Mean = 52.5 years
Sd = 7.8 years		 East Asian Chinese UKB —
PSS010832 — — 3,920 individuals,
38.0 % Male samples
 Mean = 54.3 years
Sd = 7.5 years		 European Polish UKB —
PSS010580 — — 1,122 individuals,
60.0 % Male samples
 Mean = 52.0 years
Sd = 8.0 years		 Greater Middle Eastern (Middle Eastern, North African or Persian) Iranian UKB —
PSS010328 — — 2,424 individuals,
36.0 % Male samples
 Mean = 52.5 years
Sd = 8.1 years		 African American or Afro-Caribbean Caribbean UKB —
PSS010748 — — 3,819 individuals,
46.0 % Male samples
 Mean = 51.9 years
Sd = 8.1 years		 African unspecified Nigerian UKB —