Polygenic Score (PGS) ID: PGS002009

Predicted Trait
Reported Trait Systolic blood pressure, automated reading
Mapped Trait(s) systolic blood pressure (EFO_0006335)
Additional Trait Information physical measures
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-PLR_systolic_BP
Development Method
Name Penalized regression (bigstatsr)
Parameters HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 68,449
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
PPM010946 PSS009494|
European Ancestry|
18,717 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Systolic blood pressure, automated reading Partial Correlation (partial-r): 0.2548 [0.2414, 0.2682] sex, age, birth date, deprivation index, 16 PCs
PPM010947 PSS009268|
European Ancestry|
3,930 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Systolic blood pressure, automated reading Partial Correlation (partial-r): 0.2702 [0.2409, 0.299] sex, age, birth date, deprivation index, 16 PCs
PPM010948 PSS008822|
European Ancestry|
6,337 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Systolic blood pressure, automated reading Partial Correlation (partial-r): 0.2197 [0.1961, 0.243] sex, age, birth date, deprivation index, 16 PCs
PPM010949 PSS008596|
Greater Middle Eastern Ancestry|
1,151 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Systolic blood pressure, automated reading Partial Correlation (partial-r): 0.2284 [0.1724, 0.2829] sex, age, birth date, deprivation index, 16 PCs
PPM010950 PSS008374|
South Asian Ancestry|
6,098 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Systolic blood pressure, automated reading Partial Correlation (partial-r): 0.1877 [0.1633, 0.2118] sex, age, birth date, deprivation index, 16 PCs
PPM010951 PSS008150|
East Asian Ancestry|
1,719 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Systolic blood pressure, automated reading Partial Correlation (partial-r): 0.2163 [0.1705, 0.2612] sex, age, birth date, deprivation index, 16 PCs
PPM010953 PSS009042|
African Ancestry|
3,850 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Systolic blood pressure, automated reading Partial Correlation (partial-r): 0.1046 [0.0732, 0.1358] sex, age, birth date, deprivation index, 16 PCs
PPM010952 PSS007938|
African Ancestry|
2,438 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Systolic blood pressure, automated reading Partial Correlation (partial-r): 0.104 [0.0644, 0.1433] 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
PSS009042 3,850 individuals African unspecified Nigeria (West Africa) UKB
PSS009268 3,930 individuals European Poland (NE Europe) UKB
PSS008596 1,151 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS008374 6,098 individuals South Asian India (South Asia) UKB
PSS009494 18,717 individuals European UK (+ Ireland) UKB
PSS008822 6,337 individuals European Italy (South Europe) UKB
PSS008150 1,719 individuals East Asian China (East Asia) UKB
PSS007938 2,438 individuals African American or Afro-Caribbean Carribean UKB