Polygenic Score (PGS) ID: PGS001945

Predicted Trait
Reported Trait Creatinine
Mapped Trait(s) creatinine measurement (EFO_0004518)
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_creatinine
Development Method
Name Penalized regression (bigstatsr)
Parameters HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 76,800
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
PPM010435 PSS009439|
European Ancestry|
18,993 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Creatinine Partial Correlation (partial-r): 0.3568 [0.3443, 0.3691] sex, age, birth date, deprivation index, 16 PCs
PPM010436 PSS009213|
European Ancestry|
3,950 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Creatinine Partial Correlation (partial-r): 0.3499 [0.3221, 0.377] sex, age, birth date, deprivation index, 16 PCs
PPM010437 PSS008767|
European Ancestry|
6,322 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Creatinine Partial Correlation (partial-r): 0.3344 [0.3123, 0.3562] sex, age, birth date, deprivation index, 16 PCs
PPM010438 PSS008541|
Greater Middle Eastern Ancestry|
1,124 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Creatinine Partial Correlation (partial-r): 0.3425 [0.2894, 0.3936] sex, age, birth date, deprivation index, 16 PCs
PPM010439 PSS008319|
South Asian Ancestry|
6,003 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Creatinine Partial Correlation (partial-r): 0.2881 [0.2647, 0.3112] sex, age, birth date, deprivation index, 16 PCs
PPM010440 PSS008096|
East Asian Ancestry|
1,716 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Creatinine Partial Correlation (partial-r): 0.2465 [0.2013, 0.2907] sex, age, birth date, deprivation index, 16 PCs
PPM010441 PSS007883|
African Ancestry|
2,345 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Creatinine Partial Correlation (partial-r): 0.1379 [0.0978, 0.1776] sex, age, birth date, deprivation index, 16 PCs
PPM010442 PSS008987|
African Ancestry|
3,655 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Creatinine Partial Correlation (partial-r): 0.1382 [0.1062, 0.17] 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
PSS007883 2,345 individuals African American or Afro-Caribbean Carribean UKB
PSS008541 1,124 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS008319 6,003 individuals South Asian India (South Asia) UKB
PSS008767 6,322 individuals European Italy (South Europe) UKB
PSS008987 3,655 individuals African unspecified Nigeria (West Africa) UKB
PSS009213 3,950 individuals European Poland (NE Europe) UKB
PSS009439 18,993 individuals European UK (+ Ireland) UKB
PSS008096 1,716 individuals East Asian China (East Asia) UKB