Polygenic Score (PGS) ID: PGS000980

Predicted Trait
Reported Trait Use of sun / ultraviolet protection (always)
Mapped Trait(s) sun exposure measurement (EFO_0010729)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/BIN_FC40002267
Released in PGS Catalog: Oct. 21, 2021
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Terms and Licenses
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 GBE_BIN_FC40002267
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 2,594
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000244
Citation (link to publication) Tanigawa Y et al. PLoS Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
269,577 individuals (100%)
PGS Evaluation
European: 40%
African: 20%
East Asian: 20%
South Asian: 20%
5 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
—
[
  • 60,752 cases
  • , 208,825 controls
]
 European UKB — — — white British ancestry —

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
PPM007688 PSS003929|
African Ancestry|
6,273 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Use of sun/uv protection (Always) — AUROC: 0.64912 [0.62037, 0.67788] R²: 0.04065
Incremental AUROC (full-covars): -0.00306
PGS R2 (no covariates): 0.00204
PGS AUROC (no covariates): 0.53089 [0.5, 0.56177]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007689 PSS003930|
East Asian Ancestry|
1,652 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Use of sun/uv protection (Always) — AUROC: 0.65218 [0.6125, 0.69186] R²: 0.0619
Incremental AUROC (full-covars): 0.00077
PGS R2 (no covariates): 0.00031
PGS AUROC (no covariates): 0.51403 [0.47131, 0.55674]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007690 PSS003931|
European Ancestry|
24,868 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Use of sun/uv protection (Always) — AUROC: 0.64596 [0.63785, 0.65407] R²: 0.06856
Incremental AUROC (full-covars): 0.0058
PGS R2 (no covariates): 0.01625
PGS AUROC (no covariates): 0.57105 [0.56245, 0.57964]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007691 PSS003932|
South Asian Ancestry|
7,396 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Use of sun/uv protection (Always) — AUROC: 0.63507 [0.60805, 0.6621] PGS R2 (no covariates): 0.00075
R²: 0.03575
Incremental AUROC (full-covars): -0.00025
PGS AUROC (no covariates): 0.51757 [0.4904, 0.54473]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007692 PSS003933|
European Ancestry|
67,387 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Use of sun/uv protection (Always) — AUROC: 0.63198 [0.62709, 0.63688] R²: 0.05677
Incremental AUROC (full-covars): 0.01257
PGS R2 (no covariates): 0.01131
PGS AUROC (no covariates): 0.55692 [0.55172, 0.56212]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method

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
PSS003932 — —
[
  • 460 cases
  • , 6,936 controls
]
 — South Asian — UKB —
PSS003933 — —
[
  • 15,222 cases
  • , 52,165 controls
]
 — European white British ancestry UKB Testing cohort (heldout set)
PSS003929 — —
[
  • 366 cases
  • , 5,907 controls
]
 — African unspecified — UKB —
PSS003930 — —
[
  • 187 cases
  • , 1,465 controls
]
 — East Asian — UKB —
PSS003931 — —
[
  • 5,387 cases
  • , 19,481 controls
]
 — European non-white British ancestry UKB —