Polygenic Score (PGS) ID: PGS004065

Predicted Trait
Reported Trait Height
Mapped Trait(s) body height (EFO_0004339)
Released in PGS Catalog: Dec. 19, 2023
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PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name megaprs.auto.GCST90018959.Height
Development Method
Name megaprs.auto
Parameters Model:Model202,Type:bayesr,Her_Scaling:1,Lasso_lambda:NA,Lasso_s:NA,Bolt_p:NA,Bolt_f2:NA,BayesR_p1:0.96,BayesR_p2:0.02,BayesR_p3:0.01,BayesR_p4:0.01
Variants
Original Genome Build GRCh38
Number of Variants 980,499
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000517
Citation (link to publication) Monti R et al. Am J Hum Genet (2024)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 68.6%
East Asian: 31.4%
525,444 individuals (100%)
PGS Evaluation
European: 60%
South Asian: 40%
5 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST90018959
Europe PMC: 34594039
 360,388 individuals European NR
GWAS Catalog: GCST90018959
Europe PMC: 34594039
 165,056 individuals East Asian 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
PPM020080 PSS011219|
European Ancestry|
190,013 individuals
 PGP000517 |
Monti R et al. Am J Hum Genet (2024)
 Reported Trait: Height β: 0.33881 [0.33457883, 0.34303963] — R²: 0.11479 [0.11194299, 0.11767619] 0 beta = sd_trait/sd_pgs = pearson correlation
PPM020081 PSS011230|
European Ancestry|
267,343 individuals
 PGP000517 |
Monti R et al. Am J Hum Genet (2024)
 Reported Trait: Height β: 0.30485 [0.30124419, 0.30846464] — R²: 0.09294 [0.09074806, 0.09515043] 0 beta = sd_trait/sd_pgs = pearson correlation
PPM020082 PSS011243|
South Asian Ancestry|
34,089 individuals
 PGP000517 |
Monti R et al. Am J Hum Genet (2024)
 Reported Trait: Height β: 0.26196 [0.2517198, 0.27220998] — R²: 0.06863 [0.06336286, 0.07409827] 0 beta = sd_trait/sd_pgs = pearson correlation
PPM020083 PSS011259|
European Ancestry|
66,700 individuals
 PGP000517 |
Monti R et al. Am J Hum Genet (2024)
 Reported Trait: Height β: 0.31748 [0.31028548, 0.32467847] — R²: 0.10079 [0.09627708, 0.10541611] 0 beta = sd_trait/sd_pgs = pearson correlation
PPM020084 PSS011287|
South Asian Ancestry|
9,108 individuals
 PGP000517 |
Monti R et al. Am J Hum Genet (2024)
 Reported Trait: Height β: 0.26382 [0.24401318, 0.28363626] — R²: 0.0696 [0.05954243, 0.08044953] 0 beta = sd_trait/sd_pgs = pearson correlation

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
PSS011243 — — 34,089 individuals — South Asian — G&H —
PSS011219 — — 190,013 individuals — European — EB —
PSS011287 — — 9,108 individuals — South Asian — UKB —
PSS011259 — — 66,700 individuals — European — HUNT —
PSS011230 — — 267,343 individuals — European — FinnGen —