Polygenic Score (PGS) ID: PGS002146

Predicted Trait
Reported Trait Standing height
Mapped Trait(s) body height (EFO_0004339)
Additional Trait Information physical measures
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_height
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 922,538
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
PPM012015 PSS009416|
European Ancestry|
19,953 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Standing height — — Partial Correlation (partial-r): 0.6133 [0.6046, 0.6219] sex, age, birth date, deprivation index, 16 PCs —
PPM012016 PSS009190|
European Ancestry|
4,126 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Standing height — — Partial Correlation (partial-r): 0.5922 [0.5719, 0.6117] sex, age, birth date, deprivation index, 16 PCs —
PPM012017 PSS008744|
European Ancestry|
6,633 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Standing height — — Partial Correlation (partial-r): 0.5752 [0.5589, 0.5911] sex, age, birth date, deprivation index, 16 PCs —
PPM012018 PSS008518|
Greater Middle Eastern Ancestry|
1,180 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Standing height — — Partial Correlation (partial-r): 0.4948 [0.4501, 0.5371] sex, age, birth date, deprivation index, 16 PCs —
PPM012019 PSS008296|
South Asian Ancestry|
6,152 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Standing height — — Partial Correlation (partial-r): 0.4752 [0.4556, 0.4943] sex, age, birth date, deprivation index, 16 PCs —
PPM012020 PSS008073|
East Asian Ancestry|
1,801 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Standing height — — Partial Correlation (partial-r): 0.4297 [0.3911, 0.4668] sex, age, birth date, deprivation index, 16 PCs —
PPM012021 PSS007860|
African Ancestry|
2,450 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Standing height — — Partial Correlation (partial-r): 0.3207 [0.2846, 0.356] sex, age, birth date, deprivation index, 16 PCs —
PPM012022 PSS008964|
African Ancestry|
3,863 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Standing height — — Partial Correlation (partial-r): 0.2554 [0.2256, 0.2847] 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
PSS008964 — — 3,863 individuals — African unspecified Nigeria (West Africa) UKB —
PSS009190 — — 4,126 individuals — European Poland (NE Europe) UKB —
PSS008518 — — 1,180 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS008744 — — 6,633 individuals — European Italy (South Europe) UKB —
PSS008296 — — 6,152 individuals — South Asian India (South Asia) UKB —
PSS009416 — — 19,953 individuals — European UK (+ Ireland) UKB —
PSS008073 — — 1,801 individuals — East Asian China (East Asia) UKB —
PSS007860 — — 2,450 individuals — African American or Afro-Caribbean Carribean UKB —