Polygenic Score (PGS) ID: PGS002097

Predicted Trait
Reported Trait Allergy/adverse effect of penicillin
Mapped Trait(s) drug allergy (EFO_0009482)
Additional Trait Information injuries & poisonings
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_960.2
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 742,904
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
PPM011632 PSS009362|
European Ancestry|
19,352 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Allergy/adverse effect of penicillin — — Partial Correlation (partial-r): 0.0397 [0.0256, 0.0537] sex, age, birth date, deprivation index, 16 PCs —
PPM011633 PSS009136|
European Ancestry|
4,025 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Allergy/adverse effect of penicillin — — Partial Correlation (partial-r): 0.0394 [0.0085, 0.0703] sex, age, birth date, deprivation index, 16 PCs —
PPM011635 PSS008464|
Greater Middle Eastern Ancestry|
1,172 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Allergy/adverse effect of penicillin — — Partial Correlation (partial-r): -0.0396 [-0.0971, 0.0182] sex, age, birth date, deprivation index, 16 PCs —
PPM011636 PSS008244|
South Asian Ancestry|
6,180 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Allergy/adverse effect of penicillin — — Partial Correlation (partial-r): 0.0264 [0.0015, 0.0514] sex, age, birth date, deprivation index, 16 PCs —
PPM011637 PSS008022|
East Asian Ancestry|
1,773 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Allergy/adverse effect of penicillin — — Partial Correlation (partial-r): -0.0013 [-0.0481, 0.0455] sex, age, birth date, deprivation index, 16 PCs —
PPM011638 PSS007808|
African Ancestry|
2,406 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Allergy/adverse effect of penicillin — — Partial Correlation (partial-r): -0.0128 [-0.0529, 0.0273] sex, age, birth date, deprivation index, 16 PCs —
PPM011639 PSS008912|
African Ancestry|
3,818 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Allergy/adverse effect of penicillin — — Partial Correlation (partial-r): 0.0043 [-0.0275, 0.0361] sex, age, birth date, deprivation index, 16 PCs —
PPM011634 PSS008690|
European Ancestry|
6,493 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Allergy/adverse effect of penicillin — — Partial Correlation (partial-r): 0.0313 [0.0069, 0.0556] 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
PSS009136 — — 4,025 individuals — European Poland (NE Europe) UKB —
PSS008464 — — 1,172 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009362 — — 19,352 individuals — European UK (+ Ireland) UKB —
PSS008912 — — 3,818 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008244 — — 6,180 individuals — South Asian India (South Asia) UKB —
PSS008690 — — 6,493 individuals — European Italy (South Europe) UKB —
PSS008022 — — 1,773 individuals — East Asian China (East Asia) UKB —
PSS007808 — — 2,406 individuals — African American or Afro-Caribbean Carribean UKB —