Polygenic Score (PGS) ID: PGS003519

Predicted Trait
Reported Trait General happiness with own health
Mapped Trait(s) health satisfaction measurement (EFO_0009724)
Released in PGS Catalog: April 12, 2023
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 cont-decay-less_happy_with_health
Development Method
Name LDpred2-auto
Parameters vec_p_init = seq_log(1e-4, 0.9, length.out = 10), burn_in = 100, num_iter = 500, report_step = 5
Variants
Original Genome Build GRCh37
Number of Variants 979,739
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000457
Citation (link to publication) Ding Y et al. bioRxiv (2022) Preprint
Ancestry Distribution
Score Development/Training
European: 100%
120,158 individuals (100%)
PGS Evaluation
European: 44.4%
African: 22.2%
East Asian: 11.1%
Greater Middle Eastern: 11.1%
South Asian: 11.1%
9 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
— 120,158 individuals,
0.44 % Male samples
 European UKB — Mean = 56.1 years
Sd = 7.6 years		 — white British —

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
PPM017447 PSS010882|
European Ancestry|
6,496 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: General happiness with own health — — partial-R2: 0.01 sex, age, deprivation index, PC1-16 —
PPM017531 PSS010798|
European Ancestry|
1,246 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: General happiness with own health — — partial-R2: 0.01 sex, age, deprivation index, PC1-16 —
PPM017699 PSS010546|
Greater Middle Eastern Ancestry|
199 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: General happiness with own health — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM017783 PSS010210|
European Ancestry|
948 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: General happiness with own health — — partial-R2: 0.01 sex, age, deprivation index, PC1-16 —
PPM017867 PSS010462|
South Asian Ancestry|
815 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: General happiness with own health — — partial-R2: 0.01 sex, age, deprivation index, PC1-16 —
PPM017951 PSS010378|
East Asian Ancestry|
424 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: General happiness with own health — — partial-R2: 0.01 sex, age, deprivation index, PC1-16 —
PPM018035 PSS010294|
African Ancestry|
374 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: General happiness with own health — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM018119 PSS010714|
African Ancestry|
510 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: General happiness with own health — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —
PPM017615 PSS010630|
European Ancestry|
2,183 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: General happiness with own health — — partial-R2: 0.0 sex, age, deprivation index, PC1-16 —

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
PSS010462 — — 815 individuals,
57.0 % Male samples
 Mean = 52.6 years
Sd = 8.2 years		 South Asian Indian UKB —
PSS010882 — — 6,496 individuals,
45.0 % Male samples
 Mean = 56.2 years
Sd = 7.6 years		 European white British UKB —
PSS010210 — — 948 individuals,
43.0 % Male samples
 Mean = 57.6 years
Sd = 7.0 years		 European Ashkenazi UKB —
PSS010630 — — 2,183 individuals,
41.0 % Male samples
 Mean = 53.9 years
Sd = 8.1 years		 European Italian UKB —
PSS010378 — — 424 individuals,
26.0 % Male samples
 Mean = 52.3 years
Sd = 7.3 years		 East Asian Chinese UKB —
PSS010798 — — 1,246 individuals,
34.0 % Male samples
 Mean = 54.0 years
Sd = 7.2 years		 European Polish UKB —
PSS010546 — — 199 individuals,
56.0 % Male samples
 Mean = 54.0 years
Sd = 7.3 years		 Greater Middle Eastern (Middle Eastern, North African or Persian) Iranian UKB —
PSS010294 — — 374 individuals,
31.0 % Male samples
 Mean = 50.4 years
Sd = 7.3 years		 African American or Afro-Caribbean Caribbean UKB —
PSS010714 — — 510 individuals,
48.0 % Male samples
 Mean = 50.6 years
Sd = 7.2 years		 African unspecified Nigerian UKB —