Polygenic Score (PGS) ID: PGS001055

Predicted Trait
Reported Trait Chronotype (morning/evening person)
Mapped Trait(s) chronotype measurement (EFO_0008328)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/QT_FC1001180
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_FC1001180
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 11,428
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%
243,289 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
— 243,289 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
PPM008033 PSS007526|
African Ancestry|
5,462 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Morning/evening person (chronotype) — — R²: 0.01035 [0.00546, 0.01524]
Incremental R2 (full-covars): -2e-05
PGS R2 (no covariates): 0.00256 [0.00011, 0.00502]		 age, sex, UKB array type, Genotype PCs —
PPM008034 PSS007527|
East Asian Ancestry|
1,493 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Morning/evening person (chronotype) — — R²: 0.06869 [0.04556, 0.09182]
Incremental R2 (full-covars): 0.01362
PGS R2 (no covariates): 0.01779 [0.00537, 0.0302]		 age, sex, UKB array type, Genotype PCs —
PPM008035 PSS007528|
European Ancestry|
22,724 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Morning/evening person (chronotype) — — R²: 0.04053 [0.03573, 0.04533]
Incremental R2 (full-covars): 0.02842
PGS R2 (no covariates): 0.02756 [0.02355, 0.03157]		 age, sex, UKB array type, Genotype PCs —
PPM008036 PSS007529|
South Asian Ancestry|
6,662 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Morning/evening person (chronotype) — — R²: 0.02298 [0.01642, 0.02954]
Incremental R2 (full-covars): 0.00656
PGS R2 (no covariates): 0.00831 [0.00431, 0.01232]		 age, sex, UKB array type, Genotype PCs —
PPM008037 PSS007530|
European Ancestry|
60,873 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Morning/evening person (chronotype) — — R²: 0.04074 [0.03781, 0.04366]
Incremental R2 (full-covars): 0.03053
PGS R2 (no covariates): 0.03101 [0.02844, 0.03359]		 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
PSS007526 — — 5,462 individuals — African unspecified — UKB —
PSS007527 — — 1,493 individuals — East Asian — UKB —
PSS007528 — — 22,724 individuals — European non-white British ancestry UKB —
PSS007529 — — 6,662 individuals — South Asian — UKB —
PSS007530 — — 60,873 individuals — European white British ancestry UKB Testing cohort (heldout set)