Polygenic Score (PGS) ID: PGS002657

Predicted Trait
Reported Trait Mean platelet volume
Mapped Trait(s) mean platelet volume (EFO_0004584)
Released in PGS Catalog: June 9, 2022
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 blood_MEAN_PLATELET_VOL.PolyFun-pred
Development Method
Name PolyFun-pred
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 354,280
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%
327,205 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)
— 327,205 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
PPM014373 PSS009803|
African Ancestry|
6,153 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Mean Platelet Volume — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.1611 age, sex, age*sex, assessment center, genotyping array, 10 PCs See blood_MEAN_PLATELET_VOL.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights
PPM014422 PSS009804|
East Asian Ancestry|
892 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Mean Platelet Volume — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.2269 age, sex, age*sex, assessment center, genotyping array, 10 PCs See blood_MEAN_PLATELET_VOL.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights
PPM014471 PSS009805|
European Ancestry|
42,078 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Mean Platelet Volume — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.3972 age, sex, age*sex, assessment center, genotyping array, 10 PCs See blood_MEAN_PLATELET_VOL.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights
PPM014520 PSS009806|
South Asian Ancestry|
7,770 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Mean Platelet Volume — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.2957 age, sex, age*sex, assessment center, genotyping array, 10 PCs See blood_MEAN_PLATELET_VOL.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
PSS009804 — — 892 individuals — East Asian — UKB —
PSS009805 — — 42,078 individuals — European Non-British European UKB —
PSS009806 — — 7,770 individuals — South Asian — UKB —
PSS009803 — — 6,153 individuals — African unspecified — UKB —