Trait: creatinine clearance measurement

Experimental Factor Ontology (EFO) Information
Identifier EFO_0007934
Description The clearance rate of creatinine, that is, the volume of plasma that is cleared of creatinine by the kidneys per unit time. Creatinine clearance is calculated using the level of creatinine in a sample of urine, usually one collected over a period of 24 hours, the corresponding plasma creatinine level, and the volume of urine excreted. It is used as an approximation of the glomerular filtration rate (GFR).
Trait category
Other measurement
Mapped term CMO:0000765

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
Display options:
Ancestry legend
Multi-ancestry (including European)
Multi-ancestry (excluding European)
African
East Asian
South Asian
Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported
Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution
GWAS
Dev
Eval
 Scoring File (FTP Link)
PGS000679
(snpnet.Creatinine_in_urine)
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Creatinine in urine [umol/L] creatinine clearance measurement 5,469
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000679/ScoringFiles/PGS000679.txt.gz - Check Terms/Licenses
PGS001944
(portability-PLR_log_creatinine_urine)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Creatinine (enzymatic) in urine creatinine clearance measurement 37,529
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001944/ScoringFiles/PGS001944.txt.gz
PGS002162
(portability-ldpred2_log_creatinine_urine)
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Creatinine (enzymatic) in urine creatinine clearance measurement 922,786
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002162/ScoringFiles/PGS002162.txt.gz

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) 		Evaluated Score 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
PPM001407 PGS000679
(snpnet.Creatinine_in_urine)
 PSS000669|
African Ancestry|
5,789 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Creatinine in urine [umol/L] — — R²: 0.11165
Spearman's ρ: 0.035		 Age, sex, PCs(1-40) —
PPM001442 PGS000679
(snpnet.Creatinine_in_urine)
 PSS000670|
East Asian Ancestry|
1,045 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Creatinine in urine [umol/L] — — R²: 0.16547
Spearman's ρ: 0.049		 Age, sex, PCs(1-40) —
PPM001477 PGS000679
(snpnet.Creatinine_in_urine)
 PSS000671|
European Ancestry|
22,875 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Creatinine in urine [umol/L] — — R²: 0.16134
Spearman's ρ: 0.068		 Age, sex, PCs(1-40) —
PPM001547 PGS000679
(snpnet.Creatinine_in_urine)
 PSS000673|
European Ancestry|
62,142 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Creatinine in urine [umol/L] — — R²: 0.14919
Spearman's ρ: 0.077		 Age, sex, PCs(1-40) —
PPM001512 PGS000679
(snpnet.Creatinine_in_urine)
 PSS000672|
South Asian Ancestry|
7,009 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Creatinine in urine [umol/L] — — R²: 0.16585
Spearman's ρ: 0.056		 Age, sex, PCs(1-40) —
PPM007320 PGS000679
(snpnet.Creatinine_in_urine)
 PSS007051|
African Ancestry|
6,241 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Creatinine (enzymatic) in urine — — R²: 0.09395 [0.08045, 0.10745]
Incremental R2 (full-covars): 0.0
PGS R2 (no covariates): 0.00117 [-0.00049, 0.00283]		 age, sex, UKB array type, Genotype PCs —
PPM007321 PGS000679
(snpnet.Creatinine_in_urine)
 PSS007052|
East Asian Ancestry|
1,644 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Creatinine (enzymatic) in urine — — R²: 0.13143 [0.10159, 0.16127]
Incremental R2 (full-covars): 0.0
PGS R2 (no covariates): 0.00022 [-0.00117, 0.0016]		 age, sex, UKB array type, Genotype PCs —
PPM007322 PGS000679
(snpnet.Creatinine_in_urine)
 PSS007053|
European Ancestry|
24,146 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Creatinine (enzymatic) in urine — — R²: 0.12535 [0.11766, 0.13304]
Incremental R2 (full-covars): 0.0
PGS R2 (no covariates): 0.00508 [0.00332, 0.00685]		 age, sex, UKB array type, Genotype PCs —
PPM007323 PGS000679
(snpnet.Creatinine_in_urine)
 PSS007054|
South Asian Ancestry|
7,474 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Creatinine (enzymatic) in urine — — R²: 0.11942 [0.10595, 0.1329]
Incremental R2 (full-covars): 0.0
PGS R2 (no covariates): 0.00174 [-0.0001, 0.00358]		 age, sex, UKB array type, Genotype PCs —
PPM007324 PGS000679
(snpnet.Creatinine_in_urine)
 PSS007055|
European Ancestry|
65,669 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Creatinine (enzymatic) in urine — — R²: 0.10867 [0.10423, 0.1131]
Incremental R2 (full-covars): 0.0
PGS R2 (no covariates): 0.00504 [0.00398, 0.00611]		 age, sex, UKB array type, Genotype PCs —
PPM010428 PGS001944
(portability-PLR_log_creatinine_urine)
 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 PGS001944
(portability-PLR_log_creatinine_urine)
 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 PGS001944
(portability-PLR_log_creatinine_urine)
 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 PGS001944
(portability-PLR_log_creatinine_urine)
 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 PGS001944
(portability-PLR_log_creatinine_urine)
 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 PGS001944
(portability-PLR_log_creatinine_urine)
 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 PGS001944
(portability-PLR_log_creatinine_urine)
 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 PGS001944
(portability-PLR_log_creatinine_urine)
 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 —
PPM012143 PGS002162
(portability-ldpred2_log_creatinine_urine)
 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): 0.132 [0.1182, 0.1458] sex, age, birth date, deprivation index, 16 PCs —
PPM012144 PGS002162
(portability-ldpred2_log_creatinine_urine)
 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): 0.1501 [0.1195, 0.1804] sex, age, birth date, deprivation index, 16 PCs —
PPM012145 PGS002162
(portability-ldpred2_log_creatinine_urine)
 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): 0.1289 [0.1048, 0.1529] sex, age, birth date, deprivation index, 16 PCs —
PPM012146 PGS002162
(portability-ldpred2_log_creatinine_urine)
 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): 0.1638 [0.1065, 0.2201] sex, age, birth date, deprivation index, 16 PCs —
PPM012147 PGS002162
(portability-ldpred2_log_creatinine_urine)
 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): 0.1233 [0.0984, 0.1482] sex, age, birth date, deprivation index, 16 PCs —
PPM012148 PGS002162
(portability-ldpred2_log_creatinine_urine)
 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): 0.0518 [0.0046, 0.0988] sex, age, birth date, deprivation index, 16 PCs —
PPM012149 PGS002162
(portability-ldpred2_log_creatinine_urine)
 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): 0.0554 [0.0151, 0.0955] sex, age, birth date, deprivation index, 16 PCs —
PPM012150 PGS002162
(portability-ldpred2_log_creatinine_urine)
 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): 0.0323 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
PSS009214 — — 3,973 individuals — European Poland (NE Europe) UKB —
PSS007884 — — 2,383 individuals — African American or Afro-Caribbean Carribean UKB —
PSS007051 — — 6,241 individuals — African unspecified — UKB —
PSS007052 — — 1,644 individuals — East Asian — UKB —
PSS007053 — — 24,146 individuals — European non-white British ancestry UKB —
PSS007054 — — 7,474 individuals — South Asian — UKB —
PSS007055 — — 65,669 individuals — European white British ancestry UKB Testing cohort (heldout set)
PSS008542 — — 1,149 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS008320 — — 6,031 individuals — South Asian India (South Asia) UKB —
PSS000669 — — 5,789 individuals — African unspecified — UKB —
PSS000670 — — 1,045 individuals — East Asian — UKB —
PSS000671 — — 22,875 individuals — European Non-British White UKB —
PSS000672 — — 7,009 individuals — South Asian — UKB —
PSS000673 — — 62,142 individuals — European
(British)		 — UKB —
PSS008988 — — 3,774 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008768 — — 6,444 individuals — European Italy (South Europe) UKB —
PSS008097 — — 1,745 individuals — East Asian China (East Asia) UKB —
PSS009440 — — 19,406 individuals — European UK (+ Ireland) UKB —