Polygenic Score (PGS) ID: PGS001008

Predicted Trait
Reported Trait Overall health rating
Mapped Trait(s) health satisfaction measurement (EFO_0009724)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/QT_FC1002178
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_QT_FC1002178
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 10,464
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000244
Citation (link to publication) Tanigawa Y et al. medRxiv (2021) Preprint
Ancestry Distribution
Score Development/Training
European: 100%
268,822 individuals (100%)
PGS Evaluation
European: 40%
African: 20%
East Asian: 20%
South Asian: 20%
5 Sample Sets

Development Samples

Score Development/Training
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
268,822 individuals European white British ancestry UKB

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
PPM007803 PSS007591|
African Ancestry|
6,303 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Overall health rating : 0.02094 [0.01405, 0.02782]
Incremental R2 (full-covars): -0.00287
PGS R2 (no covariates): 0.00121 [-0.00048, 0.0029]
age, sex, UKB array type, Genotype PCs
PPM007804 PSS007592|
East Asian Ancestry|
1,636 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Overall health rating : 0.01726 [0.00503, 0.0295]
Incremental R2 (full-covars): -0.00444
PGS R2 (no covariates): 0.00157 [-0.00218, 0.00533]
age, sex, UKB array type, Genotype PCs
PPM007805 PSS007593|
European Ancestry|
24,733 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Overall health rating : 0.03896 [0.03425, 0.04368]
Incremental R2 (full-covars): 0.01798
PGS R2 (no covariates): 0.02029 [0.01682, 0.02375]
age, sex, UKB array type, Genotype PCs
PPM007806 PSS007594|
South Asian Ancestry|
7,568 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Overall health rating : 0.02097 [0.01469, 0.02725]
Incremental R2 (full-covars): 0.00755
PGS R2 (no covariates): 0.00811 [0.00415, 0.01206]
age, sex, UKB array type, Genotype PCs
PPM007807 PSS007595|
European Ancestry|
67,195 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: Overall health rating : 0.02852 [0.02605, 0.031]
Incremental R2 (full-covars): 0.01945
PGS R2 (no covariates): 0.02062 [0.0185, 0.02274]
age, sex, UKB array type, Genotype PCs

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
PSS007591 6,303 individuals African unspecified UKB
PSS007592 1,636 individuals East Asian UKB
PSS007593 24,733 individuals European non-white British ancestry UKB
PSS007594 7,568 individuals South Asian UKB
PSS007595 67,195 individuals European white British ancestry UKB Testing cohort (heldout set)