Polygenic Score (PGS) ID: PGS001961

Predicted Trait
Reported Trait Impedance of whole body
Mapped Trait(s) body composition measurement (EFO_0005106)
Additional Trait Information physical measures
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-PLR_log_impedance
Development Method
Name Penalized regression (bigstatsr)
Parameters HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 119,500
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
PPM010563 PSS009450|
European Ancestry|
19,624 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Impedance of whole body Partial Correlation (partial-r): 0.4099 [0.3982, 0.4215] sex, age, birth date, deprivation index, 16 PCs
PPM010564 PSS009224|
European Ancestry|
4,069 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Impedance of whole body Partial Correlation (partial-r): 0.4104 [0.3845, 0.4357] sex, age, birth date, deprivation index, 16 PCs
PPM010565 PSS008778|
European Ancestry|
6,535 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Impedance of whole body Partial Correlation (partial-r): 0.3868 [0.366, 0.4073] sex, age, birth date, deprivation index, 16 PCs
PPM010566 PSS008552|
Greater Middle Eastern Ancestry|
1,151 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Impedance of whole body Partial Correlation (partial-r): 0.4087 [0.359, 0.4561] sex, age, birth date, deprivation index, 16 PCs
PPM010567 PSS008330|
South Asian Ancestry|
6,178 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Impedance of whole body Partial Correlation (partial-r): 0.366 [0.3441, 0.3874] sex, age, birth date, deprivation index, 16 PCs
PPM010568 PSS008107|
East Asian Ancestry|
1,782 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Impedance of whole body Partial Correlation (partial-r): 0.2675 [0.2236, 0.3104] sex, age, birth date, deprivation index, 16 PCs
PPM010569 PSS007894|
African Ancestry|
2,417 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Impedance of whole body Partial Correlation (partial-r): 0.229 [0.1907, 0.2666] sex, age, birth date, deprivation index, 16 PCs
PPM010570 PSS008998|
African Ancestry|
3,798 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Impedance of whole body Partial Correlation (partial-r): 0.1708 [0.1397, 0.2016] 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
PSS008998 3,798 individuals African unspecified Nigeria (West Africa) UKB
PSS008552 1,151 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS009224 4,069 individuals European Poland (NE Europe) UKB
PSS008778 6,535 individuals European Italy (South Europe) UKB
PSS008330 6,178 individuals South Asian India (South Asia) UKB
PSS009450 19,624 individuals European UK (+ Ireland) UKB
PSS008107 1,782 individuals East Asian China (East Asia) UKB
PSS007894 2,417 individuals African American or Afro-Caribbean Carribean UKB