Polygenic Score (PGS) ID: PGS001072

Predicted Trait
Reported Trait Facial aging, looking 'older than you are'
Mapped Trait(s) skin aging measurement (EFO_0008006)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/BIN_FC20001757
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_FC20001757
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 39
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%
248,639 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
—
[
  • 5,058 cases
  • , 243,581 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
PPM008118 PSS003825|
African Ancestry|
6,181 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Facial ageing (Older than you are) — AUROC: 0.7208 [0.67263, 0.76898] R²: 0.07731
Incremental AUROC (full-covars): -0.00071
PGS R2 (no covariates): 0.0002
PGS AUROC (no covariates): 0.48696 [0.43244, 0.54149]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008119 PSS003826|
East Asian Ancestry|
1,592 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Facial ageing (Older than you are) — AUROC: 0.80121 [0.73505, 0.86737] R²: 0.17243
Incremental AUROC (full-covars): 0.00575
PGS R2 (no covariates): 0.00236
PGS AUROC (no covariates): 0.52793 [0.43865, 0.61721]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008120 PSS003827|
European Ancestry|
23,150 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Facial ageing (Older than you are) — AUROC: 0.75503 [0.73445, 0.77561] R²: 0.1045
Incremental AUROC (full-covars): 0.00672
PGS R2 (no covariates): 0.02014
PGS AUROC (no covariates): 0.6104 [0.5865, 0.6343]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008121 PSS003828|
South Asian Ancestry|
7,175 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Facial ageing (Older than you are) — AUROC: 0.67677 [0.6489, 0.70465] R²: 0.05882
Incremental AUROC (full-covars): 0.00163
PGS R2 (no covariates): 0.00212
PGS AUROC (no covariates): 0.53009 [0.50029, 0.55988]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008122 PSS003829|
European Ancestry|
62,155 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Facial ageing (Older than you are) — AUROC: 0.73561 [0.72134, 0.74988] R²: 0.08185
Incremental AUROC (full-covars): 0.00813
PGS R2 (no covariates): 0.01106
PGS AUROC (no covariates): 0.58021 [0.56385, 0.59658]		 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
PSS003825 — —
[
  • 118 cases
  • , 6,063 controls
]
 — African unspecified — UKB —
PSS003826 — —
[
  • 40 cases
  • , 1,552 controls
]
 — East Asian — UKB —
PSS003827 — —
[
  • 580 cases
  • , 22,570 controls
]
 — European non-white British ancestry UKB —
PSS003828 — —
[
  • 379 cases
  • , 6,796 controls
]
 — South Asian — UKB —
PSS003829 — —
[
  • 1,255 cases
  • , 60,900 controls
]
 — European white British ancestry UKB Testing cohort (heldout set)