Polygenic Score (PGS) ID: PGS003500

Predicted Trait
Reported Trait QT interval
Mapped Trait(s) QT interval (EFO_0004682)
Released in PGS Catalog: April 12, 2023
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Score Details

Score Construction
PGS Name cont-decay-ECG_QT_interval
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%
19,119 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
— 19,119 individuals,
0.49 % Male samples
 European UKB — Mean = 55.2 years
Sd = 7.4 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
PPM017428 PSS010861|
European Ancestry|
1,040 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: QT interval — — partial-R2: 0.04 sex, age, deprivation index, PC1-16 —
PPM017512 PSS010777|
European Ancestry|
192 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: QT interval — — partial-R2: 0.04 sex, age, deprivation index, PC1-16 —
PPM017596 PSS010609|
European Ancestry|
220 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: QT interval — — partial-R2: 0.03 sex, age, deprivation index, PC1-16 —
PPM017680 PSS010525|
Greater Middle Eastern Ancestry|
26 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: QT interval — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM017764 PSS010189|
European Ancestry|
107 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: QT interval — — partial-R2: 0.05 sex, age, deprivation index, PC1-16 —
PPM017848 PSS010441|
South Asian Ancestry|
165 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: QT interval — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM017932 PSS010357|
East Asian Ancestry|
73 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: QT interval — — partial-R2: 0.05 sex, age, deprivation index, PC1-16 —
PPM018016 PSS010273|
African Ancestry|
49 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: QT interval — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM018100 PSS010693|
African Ancestry|
61 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: QT interval — — partial-R2: 0.0 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
PSS010273 — — 49 individuals,
31.0 % Male samples
 Mean = 48.8 years
Sd = 6.4 years		 African American or Afro-Caribbean Caribbean UKB —
PSS010693 — — 61 individuals,
64.0 % Male samples
 Mean = 49.5 years
Sd = 6.5 years		 African unspecified Nigerian UKB —
PSS010441 — — 165 individuals,
66.0 % Male samples
 Mean = 51.2 years
Sd = 8.1 years		 South Asian Indian UKB —
PSS010189 — — 107 individuals,
54.0 % Male samples
 Mean = 56.2 years
Sd = 6.4 years		 European Ashkenazi UKB —
PSS010861 — — 1,040 individuals,
51.0 % Male samples
 Mean = 55.5 years
Sd = 7.5 years		 European white British UKB —
PSS010609 — — 220 individuals,
48.0 % Male samples
 Mean = 53.8 years
Sd = 7.4 years		 European Italian UKB —
PSS010357 — — 73 individuals,
34.0 % Male samples
 Mean = 50.3 years
Sd = 7.1 years		 East Asian Chinese UKB —
PSS010777 — — 192 individuals,
42.0 % Male samples
 Mean = 53.2 years
Sd = 6.4 years		 European Polish UKB —
PSS010525 — — 26 individuals,
65.0 % Male samples
 Mean = 52.8 years
Sd = 6.8 years		 Greater Middle Eastern (Middle Eastern, North African or Persian) Iranian UKB —