Polygenic Score (PGS) ID: PGS002635

Predicted Trait
Reported Trait Chronotype (morning person)
Mapped Trait(s) chronotype measurement (EFO_0008328)
Released in PGS Catalog: June 9, 2022
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Score Details

Score Construction
PGS Name other_MORNINGPERSON.PolyFun-pred
Development Method
Name PolyFun-pred
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 404,978
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000332
Citation (link to publication) Weissbrod O et al. Nat Genet (2022)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
301,397 individuals (100%)
PGS Evaluation
African: 25%
East Asian: 25%
European: 25%
South Asian: 25%
4 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
— 301,397 individuals European 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
PPM014351 PSS009715|
African Ancestry|
5,524 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Chronotype (morning person) — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.0055 age, sex, age*sex, assessment center, genotyping array, 10 PCs See other_MORNINGPERSON.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights
PPM014400 PSS009716|
East Asian Ancestry|
827 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Chronotype (morning person) — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.0144 age, sex, age*sex, assessment center, genotyping array, 10 PCs See other_MORNINGPERSON.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights
PPM014449 PSS009717|
European Ancestry|
39,178 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Chronotype (morning person) — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.0373 age, sex, age*sex, assessment center, genotyping array, 10 PCs See other_MORNINGPERSON.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights
PPM014498 PSS009718|
South Asian Ancestry|
6,975 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Chronotype (morning person) — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.0146 age, sex, age*sex, assessment center, genotyping array, 10 PCs See other_MORNINGPERSON.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights

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
PSS009716 — — 827 individuals — East Asian — UKB —
PSS009717 — — 39,178 individuals — European Non-British European UKB —
PSS009718 — — 6,975 individuals — South Asian — UKB —
PSS009715 — — 5,524 individuals — African unspecified — UKB —