Polygenic Score (PGS) ID: PGS002170

Predicted Trait
Reported Trait Glucose
Mapped Trait(s) glucose measurement (EFO_0004468)
Additional Trait Information biological measures
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_log_glucose
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 602,241
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
PPM012208 PSS009219|
European Ancestry|
3,591 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Glucose — — Partial Correlation (partial-r): 0.1797 [0.1478, 0.2113] sex, age, birth date, deprivation index, 16 PCs —
PPM012209 PSS008773|
European Ancestry|
5,795 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Glucose — — Partial Correlation (partial-r): 0.1621 [0.1369, 0.1871] sex, age, birth date, deprivation index, 16 PCs —
PPM012207 PSS009445|
European Ancestry|
17,440 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Glucose — — Partial Correlation (partial-r): 0.1726 [0.1581, 0.1869] sex, age, birth date, deprivation index, 16 PCs —
PPM012210 PSS008547|
Greater Middle Eastern Ancestry|
1,034 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Glucose — — Partial Correlation (partial-r): 0.1516 [0.0909, 0.2112] sex, age, birth date, deprivation index, 16 PCs —
PPM012211 PSS008325|
South Asian Ancestry|
5,481 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Glucose — — Partial Correlation (partial-r): 0.1434 [0.1173, 0.1692] sex, age, birth date, deprivation index, 16 PCs —
PPM012213 PSS007889|
African Ancestry|
2,159 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Glucose — — Partial Correlation (partial-r): 0.0711 [0.0288, 0.1131] sex, age, birth date, deprivation index, 16 PCs —
PPM012214 PSS008993|
African Ancestry|
3,397 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Glucose — — Partial Correlation (partial-r): 0.0703 [0.0366, 0.1037] sex, age, birth date, deprivation index, 16 PCs —
PPM012212 PSS008102|
East Asian Ancestry|
1,562 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Glucose — — Partial Correlation (partial-r): 0.1358 [0.0864, 0.1844] 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
PSS008773 — — 5,795 individuals — European Italy (South Europe) UKB —
PSS009445 — — 17,440 individuals — European UK (+ Ireland) UKB —
PSS008325 — — 5,481 individuals — South Asian India (South Asia) UKB —
PSS008102 — — 1,562 individuals — East Asian China (East Asia) UKB —
PSS008993 — — 3,397 individuals — African unspecified Nigeria (West Africa) UKB —
PSS007889 — — 2,159 individuals — African American or Afro-Caribbean Carribean UKB —
PSS009219 — — 3,591 individuals — European Poland (NE Europe) UKB —
PSS008547 — — 1,034 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —