Polygenic Score (PGS) ID: PGS001141

Predicted Trait
Reported Trait Facial ageing (looking younger than you are)
Mapped Trait(s) skin aging (EFO_0005422)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/BIN_FC10001757
Released in PGS Catalog: Oct. 21, 2021
Download Score FTP directory
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_FC10001757
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 7,676
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
—
[
  • 184,796 cases
  • , 63,843 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
PPM008432 PSS003711|
African Ancestry|
6,181 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Facial ageing (Younger than you are) — AUROC: 0.62575 [0.60183, 0.64968] R²: 0.03422
Incremental AUROC (full-covars): -0.0096
PGS R2 (no covariates): 0.0
PGS AUROC (no covariates): 0.49845 [0.4741, 0.5228]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008433 PSS003712|
East Asian Ancestry|
1,592 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Facial ageing (Younger than you are) — AUROC: 0.67212 [0.6348, 0.70943] R²: 0.09924
Incremental AUROC (full-covars): -0.00079
PGS R2 (no covariates): 0.00447
PGS AUROC (no covariates): 0.53362 [0.49585, 0.57138]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008434 PSS003713|
European Ancestry|
23,150 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Facial ageing (Younger than you are) — AUROC: 0.62901 [0.62066, 0.63735] R²: 0.05714
Incremental AUROC (full-covars): 0.0197
PGS R2 (no covariates): 0.03222
PGS AUROC (no covariates): 0.59793 [0.58944, 0.60642]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008435 PSS003714|
South Asian Ancestry|
7,175 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Facial ageing (Younger than you are) — AUROC: 0.62356 [0.60884, 0.63828] R²: 0.05339
Incremental AUROC (full-covars): 0.0021
PGS R2 (no covariates): 0.00778
PGS AUROC (no covariates): 0.54684 [0.53181, 0.56188]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008436 PSS003715|
European Ancestry|
62,155 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Facial ageing (Younger than you are) — AUROC: 0.6077 [0.60261, 0.61279] R²: 0.04153
Incremental AUROC (full-covars): 0.03145
PGS R2 (no covariates): 0.02196
PGS AUROC (no covariates): 0.57753 [0.57241, 0.58265]		 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
PSS003711 — —
[
  • 5,603 cases
  • , 578 controls
]
 — African unspecified — UKB —
PSS003712 — —
[
  • 1,331 cases
  • , 261 controls
]
 — East Asian — UKB —
PSS003713 — —
[
  • 17,565 cases
  • , 5,585 controls
]
 — European non-white British ancestry UKB —
PSS003714 — —
[
  • 5,252 cases
  • , 1,923 controls
]
 — South Asian — UKB —
PSS003715 — —
[
  • 46,228 cases
  • , 15,927 controls
]
 — European white British ancestry UKB Testing cohort (heldout set)