Polygenic Score (PGS) ID: PGS001944

Predicted Trait
Reported Trait Creatinine (enzymatic) in urine
Mapped Trait(s) creatinine clearance measurement (EFO_0007934)
Additional Trait Information biological 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_creatinine_urine
Development Method
Name Penalized regression (bigstatsr)
Parameters HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 37,529
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
PPM010428 PSS009214|
European Ancestry|
3,973 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Creatinine (enzymatic) in urine Partial Correlation (partial-r): 0.1192 [0.0884, 0.1498] sex, age, birth date, deprivation index, 16 PCs
PPM010429 PSS008768|
European Ancestry|
6,444 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Creatinine (enzymatic) in urine Partial Correlation (partial-r): 0.1194 [0.0952, 0.1434] sex, age, birth date, deprivation index, 16 PCs
PPM010430 PSS008542|
Greater Middle Eastern Ancestry|
1,149 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Creatinine (enzymatic) in urine Partial Correlation (partial-r): 0.1276 [0.0698, 0.1846] sex, age, birth date, deprivation index, 16 PCs
PPM010431 PSS008320|
South Asian Ancestry|
6,031 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Creatinine (enzymatic) in urine Partial Correlation (partial-r): 0.1093 [0.0843, 0.1342] sex, age, birth date, deprivation index, 16 PCs
PPM010432 PSS008097|
East Asian Ancestry|
1,745 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Creatinine (enzymatic) in urine Partial Correlation (partial-r): 0.0405 [-0.0067, 0.0875] sex, age, birth date, deprivation index, 16 PCs
PPM010433 PSS007884|
African Ancestry|
2,383 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Creatinine (enzymatic) in urine Partial Correlation (partial-r): 0.0311 [-0.0093, 0.0713] sex, age, birth date, deprivation index, 16 PCs
PPM010434 PSS008988|
African Ancestry|
3,774 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Creatinine (enzymatic) in urine Partial Correlation (partial-r): 0.0307 [-0.0013, 0.0626] sex, age, birth date, deprivation index, 16 PCs
PPM010427 PSS009440|
European Ancestry|
19,406 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Creatinine (enzymatic) in urine Partial Correlation (partial-r): 0.1184 [0.1045, 0.1323] 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
PSS008768 6,444 individuals European Italy (South Europe) UKB
PSS007884 2,383 individuals African American or Afro-Caribbean Carribean UKB
PSS008542 1,149 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS009440 19,406 individuals European UK (+ Ireland) UKB
PSS008988 3,774 individuals African unspecified Nigeria (West Africa) UKB
PSS009214 3,973 individuals European Poland (NE Europe) UKB
PSS008320 6,031 individuals South Asian India (South Asia) UKB
PSS008097 1,745 individuals East Asian China (East Asia) UKB