PGS Publication: PGP000664

Publication Information (EuropePMC)
Title Multivariate genomic analysis of 5 million people elucidates the genetic architecture of shared components of the metabolic syndrome.
PubMed ID 39349817(Europe PMC)
doi 10.1038/s41588-024-01933-1
Publication Date Sept. 30, 2024
Journal Nat Genet
Author(s) Park S, Kim S, Kim B, Kim DS, Kim J, Ahn Y, Kim H, Song M, Shim I, Jung SH, Cho C, Lim S, Hong S, Jo H, Fahed AC, Natarajan P, Ellinor PT, Torkamani A, Park WY, Yu TY, Myung W, Won HH.
Released in PGS Catalog: Oct. 29, 2024

Associated Polygenic Score(s)

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Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
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Additional Diverse Ancestries
Not Reported

PGS Developed By This Publication

Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution
GWAS
Dev
Eval
Scoring File (FTP Link)
PGS004928
(MetS_gSEM)
PGP000664 |
Park S et al. Nat Genet (2024)
Metabolic syndrome metabolic syndrome 916,017
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004928/ScoringFiles/PGS004928.txt.gz

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)
Evaluated Score 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
PPM021715 PGS004928
(MetS_gSEM)
PSS011760|
East Asian Ancestry|
62,314 individuals
PGP000664 |
Park S et al. Nat Genet (2024)
Reported Trait: Metabolic syndrome OR: 1.18 [1.155, 1.205] : 0.018 sex, age, genetic PCs (1-10) Logistic regression, Computed McFadden's pseudo-R^2
PPM021714 PGS004928
(MetS_gSEM)
PSS011761|
European Ancestry|
11,139 individuals
PGP000664 |
Park S et al. Nat Genet (2024)
Reported Trait: Metabolic syndrome OR: 1.239 [1.191, 1.289] : 0.046 sex, age, genetic PCs (1-10) Logistic regression, Computed McFadden's pseudo-R^2

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
PSS011760 We used criteria defined by AHA/NHLBI was used to define MetS for individuals in KoGES. The criteria are as follows: elevated waist circumference (Asian with WCmen ≥90 cm and WCwomen ≥80 cm, elevated TG (TG ≥150 mg/dL), sex-specific reduced HDL-C (HDL-Cmen <40 mg/dL and HDL-Cwomen <50 mg/dL), elevated blood pressure (systolic ≥130 mmHg and diastolic ≥85 mmHg), and elevated FG (FG ≥100 mg/dL). The individuals were categorized as MetS positive if they satisfied three out of five criteria.
[
  • 10,684 cases
  • , 51,630 controls
]
East Asian
(Korean)
KoGES
PSS011761 We assigned the dichotomous MetS status based on AHA/NHLBI that consists of five criteria as follows: population- and sex-specific elevated waist circumference (WC, European with WCmen ≥102 cm and WCwomen ≥88 cm), elevated triglycerides (TG, TG ≥150 mg/dL), sex-specific reduced high-density lipoprotein cholesterol (HDL-C, HDL-Cmen <40 mg/dL and HDL-Cwomen < 50mg/dL), elevated blood pressure (BP, systolic ≥130 mmHg and diastolic ≥85 mmHg), and elevated fasting glucose (FG, FG ≥100 mg/dL). The individuals who satisfied three out of five criteria based on AHA/NHLBI were categorized as MetS case.
[
  • 4,641 cases
  • , 6,498 controls
]
European UKB