Polygenic Score (PGS) ID: PGS003888

Predicted Trait
Reported Trait Height
Mapped Trait(s) body height (EFO_0004339)
Released in PGS Catalog: Nov. 1, 2023
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Score Details

Score Construction
PGS Name Height_PRScsx_ARB_AMRweights
Development Method
Name PRS-CSx
Parameters a=1,b=0.5,phi=auto
Variants
Original Genome Build hg19
Number of Variants 1,067,771
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000501
Citation (link to publication) Shim I et al. Nature Communications (2023)
Ancestry Distribution
Source of Variant
Associations (GWAS)
Hispanic or Latin American: 44.6%
African: 34.7%
Multi-ancestry (excluding European): 9.4%
  • East Asian
  • Additional Asian Ancestries
Additional Diverse Ancestries: 9.2%
Not Reported: 2.1%
49,796 individuals (100%)
PGS Evaluation
Greater Middle Eastern: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST008053
Europe PMC: 31217584
 22,192 individuals Hispanic or Latin American NR
GWAS Catalog: GCST008053
Europe PMC: 31217584
 17,286 individuals African American or Afro-Caribbean NR
GWAS Catalog: GCST008053
Europe PMC: 31217584
 4,680 individuals East Asian, Asian unspecified NR
GWAS Catalog: GCST008053
Europe PMC: 31217584
 3,939 individuals Oceanian NR
GWAS Catalog: GCST008053
Europe PMC: 31217584
 647 individuals Native American NR
GWAS Catalog: GCST008053
Europe PMC: 31217584
 1,052 individuals Not reported NR

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
PPM018780 PSS011097|
Greater Middle Eastern Ancestry|
2,669 individuals
 PGP000501 |
Shim I et al. Nature Communications (2023)
 Reported Trait: Height β: 0.026 (0.0013) — R²: 0.5202 age, sex, array version, and the first 10 principal components of ancestry The reported performance was derived from a linearly combined score of 4 normalized ancestry-specific scores using the following coefficients: Score = (0.0043399119*zscoreAMR) + (0.0003544699*zscoreARB) + (0.0034973575*zscoreEAS) + (0.0218689041*zscoreEUR).

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
PSS011097 — — 2,669 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian)
(Arab)		 — NR N total after excluding missing values = 2,553