Polygenic Score (PGS) ID: PGS001018

Predicted Trait
Reported Trait Attending social / leisure activities (attend any of the followings in once a week or more often: sports club, gym, pub, social club, religious group, adult edication class, or other group activity)
Mapped Trait(s) social interaction measurement (EFO_0009592)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/BIN_FC10006160
Released in PGS Catalog: Oct. 21, 2021
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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_FC10006160
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 2,912
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%
269,092 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
—
[
  • 191,160 cases
  • , 77,932 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
PPM007853 PSS003741|
African Ancestry|
6,383 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Leisure/social activities (attend any of the followings in once a week or more often: sports club, gym, pub, social club, religious group, adult edication class, or other group activity) — AUROC: 0.57396 [0.5576, 0.59032] R²: 0.01675
Incremental AUROC (full-covars): -0.00782
PGS R2 (no covariates): 0.0
PGS AUROC (no covariates): 0.49703 [0.48018, 0.51389]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007854 PSS003742|
East Asian Ancestry|
1,633 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Leisure/social activities (attend any of the followings in once a week or more often: sports club, gym, pub, social club, religious group, adult edication class, or other group activity) — AUROC: 0.57527 [0.54681, 0.60374] R²: 0.02162
Incremental AUROC (full-covars): -0.01137
PGS R2 (no covariates): 0.00034
PGS AUROC (no covariates): 0.48407 [0.4551, 0.51303]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007855 PSS003743|
European Ancestry|
24,772 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Leisure/social activities (attend any of the followings in once a week or more often: sports club, gym, pub, social club, religious group, adult edication class, or other group activity) — AUROC: 0.58275 [0.57492, 0.59058] R²: 0.02479
Incremental AUROC (full-covars): 0.00287
PGS R2 (no covariates): 0.00278
PGS AUROC (no covariates): 0.52778 [0.51977, 0.53579]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007856 PSS003744|
South Asian Ancestry|
7,477 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Leisure/social activities (attend any of the followings in once a week or more often: sports club, gym, pub, social club, religious group, adult edication class, or other group activity) — AUROC: 0.55963 [0.54607, 0.5732] R²: 0.01282
Incremental AUROC (full-covars): -0.00061
PGS R2 (no covariates): 0.00074
PGS AUROC (no covariates): 0.51312 [0.49938, 0.52686]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007857 PSS003745|
European Ancestry|
67,254 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Leisure/social activities (attend any of the followings in once a week or more often: sports club, gym, pub, social club, religious group, adult edication class, or other group activity) — AUROC: 0.54214 [0.53736, 0.54692] R²: 0.00644
Incremental AUROC (full-covars): 0.00852
PGS R2 (no covariates): 0.00253
PGS AUROC (no covariates): 0.52663 [0.52182, 0.53145]		 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
PSS003741 — —
[
  • 4,891 cases
  • , 1,492 controls
]
 — African unspecified — UKB —
PSS003742 — —
[
  • 1,018 cases
  • , 615 controls
]
 — East Asian — UKB —
PSS003743 — —
[
  • 17,791 cases
  • , 6,981 controls
]
 — European non-white British ancestry UKB —
PSS003744 — —
[
  • 4,862 cases
  • , 2,615 controls
]
 — South Asian — UKB —
PSS003745 — —
[
  • 47,929 cases
  • , 19,325 controls
]
 — European white British ancestry UKB Testing cohort (heldout set)