Polygenic Score (PGS) ID: PGS002214

Predicted Trait
Reported Trait Neutrophil percentage
Mapped Trait(s) neutrophil percentage of leukocytes (EFO_0007990)
Additional Trait Information biological measures
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_neutrophil_perc
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 769,542
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000263
Citation (link to publication) Privé F et al. Am J Hum Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
391,124 individuals (100%)
PGS Evaluation
European: 37.5%
African: 25%
East Asian: 12.5%
Greater Middle Eastern: 12.5%
South Asian: 12.5%
8 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
— 391,124 individuals European UKB — — — UK (+ Ireland) —

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
PPM012559 PSS009480|
European Ancestry|
19,359 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Neutrophil percentage — — Partial Correlation (partial-r): 0.3042 [0.2913, 0.3169] sex, age, birth date, deprivation index, 16 PCs —
PPM012560 PSS009254|
European Ancestry|
3,988 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Neutrophil percentage — — Partial Correlation (partial-r): 0.2993 [0.2707, 0.3274] sex, age, birth date, deprivation index, 16 PCs —
PPM012561 PSS008808|
European Ancestry|
6,413 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Neutrophil percentage — — Partial Correlation (partial-r): 0.2906 [0.268, 0.3129] sex, age, birth date, deprivation index, 16 PCs —
PPM012562 PSS008582|
Greater Middle Eastern Ancestry|
1,147 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Neutrophil percentage — — Partial Correlation (partial-r): 0.2984 [0.2443, 0.3507] sex, age, birth date, deprivation index, 16 PCs —
PPM012563 PSS008360|
South Asian Ancestry|
6,055 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Neutrophil percentage — — Partial Correlation (partial-r): 0.2641 [0.2405, 0.2874] sex, age, birth date, deprivation index, 16 PCs —
PPM012564 PSS008137|
East Asian Ancestry|
1,760 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Neutrophil percentage — — Partial Correlation (partial-r): 0.2471 [0.2025, 0.2907] sex, age, birth date, deprivation index, 16 PCs —
PPM012565 PSS007924|
African Ancestry|
2,334 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Neutrophil percentage — — Partial Correlation (partial-r): 0.1602 [0.1202, 0.1996] sex, age, birth date, deprivation index, 16 PCs —
PPM012566 PSS009028|
African Ancestry|
3,681 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Neutrophil percentage — — Partial Correlation (partial-r): 0.1568 [0.125, 0.1882] sex, age, birth date, deprivation index, 16 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
PSS009028 — — 3,681 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008582 — — 1,147 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009254 — — 3,988 individuals — European Poland (NE Europe) UKB —
PSS008808 — — 6,413 individuals — European Italy (South Europe) UKB —
PSS008360 — — 6,055 individuals — South Asian India (South Asia) UKB —
PSS009480 — — 19,359 individuals — European UK (+ Ireland) UKB —
PSS008137 — — 1,760 individuals — East Asian China (East Asia) UKB —
PSS007924 — — 2,334 individuals — African American or Afro-Caribbean Carribean UKB —