Polygenic Score (PGS) ID: PGS002674

Predicted Trait
Reported Trait White blood cell count
Mapped Trait(s) leukocyte count (EFO_0004308)
Released in PGS Catalog: June 9, 2022
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Score Details

Score Construction
PGS Name blood_WHITE_COUNT.PolyFun-pred
Development Method
Name PolyFun-pred
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 491,764
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%
326,723 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)
— 326,723 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
PPM014390 PSS009871|
African Ancestry|
6,149 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: White Blood Count — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.047 age, sex, age*sex, assessment center, genotyping array, 10 PCs See blood_WHITE_COUNT.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights
PPM014439 PSS009872|
East Asian Ancestry|
893 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: White Blood Count — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.0632 age, sex, age*sex, assessment center, genotyping array, 10 PCs See blood_WHITE_COUNT.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights
PPM014488 PSS009873|
European Ancestry|
42,026 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: White Blood Count — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.1299 age, sex, age*sex, assessment center, genotyping array, 10 PCs See blood_WHITE_COUNT.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights
PPM014537 PSS009874|
South Asian Ancestry|
7,769 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: White Blood Count — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.1008 age, sex, age*sex, assessment center, genotyping array, 10 PCs See blood_WHITE_COUNT.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
PSS009871 — — 6,149 individuals — African unspecified — UKB —
PSS009872 — — 893 individuals — East Asian — UKB —
PSS009873 — — 42,026 individuals — European Non-British European UKB —
PSS009874 — — 7,769 individuals — South Asian — UKB —