Polygenic Score (PGS) ID: PGS001951

Predicted Trait
Reported Trait Whole body fat mass
Mapped Trait(s) fat body mass (EFO_0005409)
Additional Trait Information physical measures
Released in PGS Catalog: Jan. 10, 2022
Download Score FTP directory
Terms and Licenses
PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name portability-PLR_log_fat_mass
Development Method
Name Penalized regression (bigstatsr)
Parameters HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 107,776
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
PPM010483 PSS009444|
European Ancestry|
19,612 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Whole body fat mass Partial Correlation (partial-r): 0.3534 [0.3411, 0.3656] sex, age, birth date, deprivation index, 16 PCs
PPM010484 PSS009218|
European Ancestry|
4,065 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Whole body fat mass Partial Correlation (partial-r): 0.3489 [0.3215, 0.3757] sex, age, birth date, deprivation index, 16 PCs
PPM010485 PSS008772|
European Ancestry|
6,519 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Whole body fat mass Partial Correlation (partial-r): 0.3257 [0.3038, 0.3473] sex, age, birth date, deprivation index, 16 PCs
PPM010486 PSS008546|
Greater Middle Eastern Ancestry|
1,149 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Whole body fat mass Partial Correlation (partial-r): 0.2949 [0.2407, 0.3472] sex, age, birth date, deprivation index, 16 PCs
PPM010487 PSS008324|
South Asian Ancestry|
6,173 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Whole body fat mass Partial Correlation (partial-r): 0.292 [0.2689, 0.3146] sex, age, birth date, deprivation index, 16 PCs
PPM010489 PSS007888|
African Ancestry|
2,418 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Whole body fat mass Partial Correlation (partial-r): 0.1615 [0.1223, 0.2002] sex, age, birth date, deprivation index, 16 PCs
PPM010490 PSS008992|
African Ancestry|
3,794 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Whole body fat mass Partial Correlation (partial-r): 0.141 [0.1096, 0.1722] sex, age, birth date, deprivation index, 16 PCs
PPM010488 PSS008101|
East Asian Ancestry|
1,766 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Whole body fat mass Partial Correlation (partial-r): 0.2477 [0.2031, 0.2912] 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
PSS009444 19,612 individuals European UK (+ Ireland) UKB
PSS008772 6,519 individuals European Italy (South Europe) UKB
PSS008324 6,173 individuals South Asian India (South Asia) UKB
PSS008101 1,766 individuals East Asian China (East Asia) UKB
PSS007888 2,418 individuals African American or Afro-Caribbean Carribean UKB
PSS009218 4,065 individuals European Poland (NE Europe) UKB
PSS008992 3,794 individuals African unspecified Nigeria (West Africa) UKB
PSS008546 1,149 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB