Polygenic Score (PGS) ID: PGS002658

Predicted Trait
Reported Trait Monocyte count
Mapped Trait(s) monocyte count (EFO_0005091)
Released in PGS Catalog: June 9, 2022
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Score Details

Score Construction
PGS Name blood_MONOCYTE_COUNT.PolyFun-pred
Development Method
Name PolyFun-pred
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 353,881
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%
325,319 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)
— 325,319 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
PPM014521 PSS009810|
South Asian Ancestry|
7,718 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Monocyte Count — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.1406 age, sex, age*sex, assessment center, genotyping array, 10 PCs See blood_MONOCYTE_COUNT.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights
PPM014374 PSS009807|
African Ancestry|
6,119 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Monocyte Count — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.0526 age, sex, age*sex, assessment center, genotyping array, 10 PCs See blood_MONOCYTE_COUNT.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights
PPM014423 PSS009808|
East Asian Ancestry|
894 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Monocyte Count — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.0939 age, sex, age*sex, assessment center, genotyping array, 10 PCs See blood_MONOCYTE_COUNT.mixweights file at http://data.broadinstitute.org/alkesgroup/polypred_results for combination weights
PPM014472 PSS009809|
European Ancestry|
41,863 individuals
 PGP000332 |
Weissbrod O et al. Nat Genet (2022)
 Reported Trait: Monocyte Count — — Incremental R2 (full model when combined with BOLT-LMM vs. covariates alone): 0.1972 age, sex, age*sex, assessment center, genotyping array, 10 PCs See blood_MONOCYTE_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
PSS009807 — — 6,119 individuals — African unspecified — UKB —
PSS009808 — — 894 individuals — East Asian — UKB —
PSS009809 — — 41,863 individuals — European Non-British European UKB —
PSS009810 — — 7,718 individuals — South Asian — UKB —