Polygenic Score (PGS) ID: PGS001080

Predicted Trait
Reported Trait Freq. of tiredness / lethargy in last 2 weeks
Mapped Trait(s) tiredness measurement (EFO_0007946)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/QT_FC1002080
Released in PGS Catalog: Oct. 21, 2021
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Score Details

Score Construction
PGS Name GBE_QT_FC1002080
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 5,594
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%
262,479 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
— 262,479 individuals 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
PPM008160 PSS007588|
European Ancestry|
24,093 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Freq. of tiredness / lethargy in last 2 weeks — — R²: 0.02527 [0.02142, 0.02912]
Incremental R2 (full-covars): 0.00661
PGS R2 (no covariates): 0.00678 [0.00475, 0.00881]		 age, sex, UKB array type, Genotype PCs —
PPM008158 PSS007586|
African Ancestry|
5,943 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Freq. of tiredness / lethargy in last 2 weeks — — R²: 0.02179 [0.01477, 0.02881]
Incremental R2 (full-covars): -0.00162
PGS R2 (no covariates): 0.0004 [-0.00057, 0.00137]		 age, sex, UKB array type, Genotype PCs —
PPM008159 PSS007587|
East Asian Ancestry|
1,554 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Freq. of tiredness / lethargy in last 2 weeks — — R²: 0.04117 [0.02273, 0.0596]
Incremental R2 (full-covars): -0.00538
PGS R2 (no covariates): 8e-05 [-0.00075, 0.00091]		 age, sex, UKB array type, Genotype PCs —
PPM008161 PSS007589|
South Asian Ancestry|
6,965 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Freq. of tiredness / lethargy in last 2 weeks — — R²: 0.04134 [0.03271, 0.04997]
Incremental R2 (full-covars): 0.00197
PGS R2 (no covariates): 0.00195 [0.0, 0.0039]		 age, sex, UKB array type, Genotype PCs —
PPM008162 PSS007590|
European Ancestry|
65,570 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Freq. of tiredness / lethargy in last 2 weeks — — R²: 0.03173 [0.02913, 0.03434]
Incremental R2 (full-covars): 0.00645
PGS R2 (no covariates): 0.007 [0.00574, 0.00825]		 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
PSS007586 — — 5,943 individuals — African unspecified — UKB —
PSS007587 — — 1,554 individuals — East Asian — UKB —
PSS007588 — — 24,093 individuals — European non-white British ancestry UKB —
PSS007589 — — 6,965 individuals — South Asian — UKB —
PSS007590 — — 65,570 individuals — European white British ancestry UKB Testing cohort (heldout set)