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: 40%
African: 30%
East Asian: 10%
Greater Middle Eastern: 10%
South Asian: 10%
10 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
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 —
PPM020890 PSS011442|
European Ancestry|
564 individuals
 PGP000599 |
Guarischi-Sousa R et al. Circ Genom Precis Med (2023)
|Ext.		 Reported Trait: Raised coronary lesion OR: 0.92 [0.77, 1.11] — — — —
PPM020895 PSS011441|
African Ancestry|
504 individuals
 PGP000599 |
Guarischi-Sousa R et al. Circ Genom Precis Med (2023)
|Ext.		 Reported Trait: Raised coronary lesion OR: 1.06 [0.86, 1.31] — — — —

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
PSS011441 — —
[
  • 165 cases
  • , 339 controls
]
,
82.0 % Male samples
 Mean = 27.5 years African unspecified — PDAY —
PSS011442 — —
[
  • 181 cases
  • , 383 controls
]
,
77.0 % Male samples
 Mean = 26.7 years European — PDAY —
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 —