Polygenic Score (PGS) ID: PGS002120

Predicted Trait
Reported Trait QTc interval
Mapped Trait(s) QT interval (EFO_0004682)
Additional Trait Information physical measures QTC interval
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_ECG_QTC_interval
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 490,392
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000263
Citation (link to publication) Privé F et al. Am J Hum Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
391,124 individuals (100%)
PGS Evaluation
European: 37.5%
African: 25%
East Asian: 12.5%
Greater Middle Eastern: 12.5%
South Asian: 12.5%
8 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
— 391,124 individuals European UKB — — — UK (+ Ireland) —

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
PPM011815 PSS009366|
European Ancestry|
1,040 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: QTC interval — — Partial Correlation (partial-r): 0.2417 [0.1831, 0.2987] sex, age, birth date, deprivation index, 16 PCs —
PPM011816 PSS009140|
European Ancestry|
191 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: QTC interval — — Partial Correlation (partial-r): 0.2789 [0.1344, 0.4117] sex, age, birth date, deprivation index, 16 PCs —
PPM011817 PSS008694|
European Ancestry|
225 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: QTC interval — — Partial Correlation (partial-r): 0.1159 [-0.0214, 0.249] sex, age, birth date, deprivation index, 16 PCs —
PPM011818 PSS008468|
Greater Middle Eastern Ancestry|
26 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: QTC interval — — Partial Correlation (partial-r): 0.3605 [-0.6376, 0.9068] sex, age, birth date, deprivation index, 16 PCs —
PPM011819 PSS008248|
South Asian Ancestry|
165 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: QTC interval — — Partial Correlation (partial-r): -0.106 [-0.2645, 0.058] sex, age, birth date, deprivation index, 16 PCs —
PPM011820 PSS008026|
East Asian Ancestry|
72 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: QTC interval — — Partial Correlation (partial-r): 0.1801 [-0.0976, 0.4317] sex, age, birth date, deprivation index, 16 PCs —
PPM011821 PSS007812|
African Ancestry|
49 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: QTC interval — — Partial Correlation (partial-r): -0.0667 [-0.4229, 0.3073] sex, age, birth date, deprivation index, 16 PCs —
PPM011822 PSS008916|
African Ancestry|
61 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: QTC interval — — Partial Correlation (partial-r): 0.2359 [-0.0773, 0.5068] sex, age, birth date, deprivation index, 16 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
PSS007812 — — 49 individuals — African American or Afro-Caribbean Carribean UKB —
PSS009140 — — 191 individuals — European Poland (NE Europe) UKB —
PSS008468 — — 26 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009366 — — 1,040 individuals — European UK (+ Ireland) UKB —
PSS008694 — — 225 individuals — European Italy (South Europe) UKB —
PSS008248 — — 165 individuals — South Asian India (South Asia) UKB —
PSS008916 — — 61 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008026 — — 72 individuals — East Asian China (East Asia) UKB —