Polygenic Score (PGS) ID: PGS002033

Predicted Trait
Reported Trait Overweight, obesity and other hyperalimentation
Mapped Trait(s)
Additional Trait Information endocrine/metabolic
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_278
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 846,292
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
PPM011135 PSS009295|
European Ancestry|
20,000 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Overweight, obesity and other hyperalimentation Partial Correlation (partial-r): 0.0789 [0.0651, 0.0927] sex, age, birth date, deprivation index, 16 PCs
PPM011137 PSS008623|
European Ancestry|
6,660 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Overweight, obesity and other hyperalimentation Partial Correlation (partial-r): 0.0824 [0.0585, 0.1062] sex, age, birth date, deprivation index, 16 PCs
PPM011138 PSS008398|
Greater Middle Eastern Ancestry|
1,200 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Overweight, obesity and other hyperalimentation Partial Correlation (partial-r): 0.0801 [0.0232, 0.1366] sex, age, birth date, deprivation index, 16 PCs
PPM011139 PSS008177|
South Asian Ancestry|
6,331 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Overweight, obesity and other hyperalimentation Partial Correlation (partial-r): 0.0502 [0.0255, 0.0747] sex, age, birth date, deprivation index, 16 PCs
PPM011140 PSS007963|
East Asian Ancestry|
1,810 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Overweight, obesity and other hyperalimentation Partial Correlation (partial-r): 0.0109 [-0.0354, 0.0572] sex, age, birth date, deprivation index, 16 PCs
PPM011141 PSS007744|
African Ancestry|
2,484 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Overweight, obesity and other hyperalimentation Partial Correlation (partial-r): 0.0265 [-0.013, 0.0659] sex, age, birth date, deprivation index, 16 PCs
PPM011142 PSS008848|
African Ancestry|
3,924 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Overweight, obesity and other hyperalimentation Partial Correlation (partial-r): 0.0516 [0.0203, 0.0829] sex, age, birth date, deprivation index, 16 PCs
PPM011136 PSS009069|
European Ancestry|
4,136 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Overweight, obesity and other hyperalimentation Partial Correlation (partial-r): 0.0523 [0.0218, 0.0827] 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
PSS009069 4,136 individuals European Poland (NE Europe) UKB
PSS008398 1,200 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS009295 20,000 individuals European UK (+ Ireland) UKB
PSS008623 6,660 individuals European Italy (South Europe) UKB
PSS008177 6,331 individuals South Asian India (South Asia) UKB
PSS008848 3,924 individuals African unspecified Nigeria (West Africa) UKB
PSS007963 1,810 individuals East Asian China (East Asia) UKB
PSS007744 2,484 individuals African American or Afro-Caribbean Carribean UKB