Polygenic Score (PGS) ID: PGS001905

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

Score Construction
PGS Name portability-PLR_ECG_QT_interval
Development Method
Name Penalized regression (bigstatsr)
Parameters HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 2,300
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
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
391,124 individuals European UK (+ Ireland) UKB

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
PPM010124 PSS009141|
European Ancestry|
193 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: QT interval Partial Correlation (partial-r): 0.1764 [0.0279, 0.3172] sex, age, birth date, deprivation index, 16 PCs
PPM010125 PSS008695|
European Ancestry|
226 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: QT interval Partial Correlation (partial-r): 0.2353 [0.1019, 0.3604] sex, age, birth date, deprivation index, 16 PCs
PPM010126 PSS008469|
Greater Middle Eastern Ancestry|
26 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: QT interval Partial Correlation (partial-r): -0.1488 [-0.8569, 0.7538] sex, age, birth date, deprivation index, 16 PCs
PPM010127 PSS008249|
South Asian Ancestry|
165 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: QT interval Partial Correlation (partial-r): -0.0176 [-0.18, 0.1459] sex, age, birth date, deprivation index, 16 PCs
PPM010128 PSS008027|
East Asian Ancestry|
73 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: QT interval Partial Correlation (partial-r): 0.325 [0.06, 0.5472] sex, age, birth date, deprivation index, 16 PCs
PPM010129 PSS007813|
African Ancestry|
49 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: QT interval Partial Correlation (partial-r): -0.034 [-0.3956, 0.3367] sex, age, birth date, deprivation index, 16 PCs
PPM010130 PSS008917|
African Ancestry|
61 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: QT interval Partial Correlation (partial-r): 0.1053 [-0.2091, 0.4] sex, age, birth date, deprivation index, 16 PCs
PPM010123 PSS009367|
European Ancestry|
1,042 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: QT interval Partial Correlation (partial-r): 0.1488 [0.0883, 0.2082] 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
PSS007813 49 individuals African American or Afro-Caribbean Carribean UKB
PSS008469 26 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS009141 193 individuals European Poland (NE Europe) UKB
PSS008695 226 individuals European Italy (South Europe) UKB
PSS008917 61 individuals African unspecified Nigeria (West Africa) UKB
PSS008249 165 individuals South Asian India (South Asia) UKB
PSS009367 1,042 individuals European UK (+ Ireland) UKB
PSS008027 73 individuals East Asian China (East Asia) UKB