Polygenic Score (PGS) ID: PGS001952

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-PLR_log_glucose
Development Method
Name Penalized regression (bigstatsr)
Parameters HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 14,811
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
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
391,124 individuals European UK (+ Ireland) 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
PPM010492 PSS009219|
European Ancestry|
3,591 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Glucose Partial Correlation (partial-r): 0.1835 [0.1516, 0.215] sex, age, birth date, deprivation index, 16 PCs
PPM010493 PSS008773|
European Ancestry|
5,795 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Glucose Partial Correlation (partial-r): 0.1572 [0.1319, 0.1822] sex, age, birth date, deprivation index, 16 PCs
PPM010491 PSS009445|
European Ancestry|
17,440 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Glucose Partial Correlation (partial-r): 0.1692 [0.1548, 0.1836] sex, age, birth date, deprivation index, 16 PCs
PPM010494 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): 0.1414 [0.0806, 0.2012] sex, age, birth date, deprivation index, 16 PCs
PPM010495 PSS008325|
South Asian Ancestry|
5,481 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Glucose Partial Correlation (partial-r): 0.142 [0.116, 0.1679] sex, age, birth date, deprivation index, 16 PCs
PPM010496 PSS008102|
East Asian Ancestry|
1,562 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Glucose Partial Correlation (partial-r): 0.1327 [0.0833, 0.1814] sex, age, birth date, deprivation index, 16 PCs
PPM010497 PSS007889|
African Ancestry|
2,159 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Glucose Partial Correlation (partial-r): 0.0635 [0.0212, 0.1056] sex, age, birth date, deprivation index, 16 PCs
PPM010498 PSS008993|
African Ancestry|
3,397 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Glucose Partial Correlation (partial-r): 0.0622 [0.0286, 0.0958] 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