PGS Publication: PGP000751

Publication Information (EuropePMC)
Title Healthy lifestyle practice correlates with decreased obesity prevalence in individuals with high polygenic risk: TMM CommCohort study.
PubMed ID 39174808(Europe PMC)
doi 10.1038/s10038-024-01280-3
Publication Date Aug. 22, 2024
Journal J Hum Genet
Author(s) Sutoh Y, Hachiya T, Otsuka-Yamasaki Y, Komaki S, Minabe S, Ohmomo H, Sasaki M, Shimizu A.
Released in PGS Catalog: Aug. 6, 2025

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
Display options:
Ancestry legend
Multi-ancestry (including European)
Multi-ancestry (excluding European)
African
East Asian
South Asian
Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
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)
PGS005279
(Q001_BMI_cutRSQ0.3_LD_rho0.03)
 PGP000751 |
Sutoh Y et al. J Hum Genet (2024)
 Body mass index (BMI) body mass index 5,000,812
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005279/ScoringFiles/PGS005279.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
PPM022764 PGS005279
(Q001_BMI_cutRSQ0.3_LD_rho0.03)
 PSS012075|
East Asian Ancestry|
11,947 individuals
 PGP000751 |
Sutoh Y et al. J Hum Genet (2024)
 Reported Trait: body mass index [BMI] — — R²: 0.069 age, age^2, sex, genetic PCs (1-10) The BMI was subjected to a natural logarithmic transformation and adjusted for covariates. Then, the residuals were processed using a rank-based normal transformation.
PPM022765 PGS005279
(Q001_BMI_cutRSQ0.3_LD_rho0.03)
 PSS012077|
East Asian Ancestry|
6,796 individuals
 PGP000751 |
Sutoh Y et al. J Hum Genet (2024)
 Reported Trait: body mass index [BMI] — — R²: 0.06 age, age^2, sex, genetic PCs (1-10) The BMI was subjected to a natural logarithmic transformation and adjusted for covariates. Then, the residuals were processed using a rank-based normal transformation.
PPM022766 PGS005279
(Q001_BMI_cutRSQ0.3_LD_rho0.03)
 PSS012076|
East Asian Ancestry|
50,195 individuals
 PGP000751 |
Sutoh Y et al. J Hum Genet (2024)
 Reported Trait: waist circumference [WC] — — R²: 0.039 age, age^2, sex, genetic PCs (1-10) The WC was adjusted for covariates. Then, the residuals were processed using a rank-based normal transformation.
PPM022768 PGS005279
(Q001_BMI_cutRSQ0.3_LD_rho0.03)
 PSS012077|
East Asian Ancestry|
6,796 individuals
 PGP000751 |
Sutoh Y et al. J Hum Genet (2024)
 Reported Trait: waist circumference [WC] — — R²: 0.04 age, age^2, sex, genetic PCs (1-10) The WC was adjusted for covariates. Then, the residuals were processed using a rank-based normal transformation.
PPM022763 PGS005279
(Q001_BMI_cutRSQ0.3_LD_rho0.03)
 PSS012076|
East Asian Ancestry|
50,195 individuals
 PGP000751 |
Sutoh Y et al. J Hum Genet (2024)
 Reported Trait: body mass index [BMI] — — R²: 0.063 age, age^2, sex, genetic PCs (1-10) The BMI was subjected to a natural logarithmic transformation and adjusted for covariates. Then, the residuals were processed using a rank-based normal transformation.
PPM022767 PGS005279
(Q001_BMI_cutRSQ0.3_LD_rho0.03)
 PSS012075|
East Asian Ancestry|
11,947 individuals
 PGP000751 |
Sutoh Y et al. J Hum Genet (2024)
 Reported Trait: waist circumference [WC] — — R²: 0.043 age, age^2, sex, genetic PCs (1-10) The WC was adjusted for covariates. Then, the residuals were processed using a rank-based normal transformation.

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
PSS012075 — — 11,947 individuals,
24.4 % Male samples
 Mean = 58.0 years
Sd = 12.9 years		 East Asian
(Japanese)		 — ToMMo —
PSS012076 — — 50,195 individuals,
39.1 % Male samples
 Mean = 60.4 years
Sd = 11.3 years		 East Asian
(Japanese)		 — IMM, ToMMo —
PSS012077 — — 6,796 individuals,
33.2 % Male samples
 Mean = 55.7 years
Sd = 13.5 years		 East Asian
(Japanese)		 — IMM —