Trait: serum urea measurement

Experimental Factor Ontology (EFO) Information
Identifier EFO_0009795
Description Quantification of the amount of urea in serum.
Trait category
Other measurement
Synonym urea measurement
Mapped term PMID:30808845

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)
PGS000701
(snpnet.Urea)
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Urea [mmol/L] serum urea measurement 12,351
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000701/ScoringFiles/PGS000701.txt.gz - Check Terms/Licenses

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
PPM001429 PGS000701
(snpnet.Urea)
 PSS000782|
African Ancestry|
6,015 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Urea [mmol/L] — — R²: 0.13035
Spearman's ρ: 0.111		 Age, sex, PCs(1-40) —
PPM001464 PGS000701
(snpnet.Urea)
 PSS000783|
East Asian Ancestry|
1,080 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Urea [mmol/L] — — R²: 0.12883
Spearman's ρ: 0.147		 Age, sex, PCs(1-40) —
PPM001499 PGS000701
(snpnet.Urea)
 PSS000784|
European Ancestry|
23,562 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Urea [mmol/L] — — R²: 0.15772
Spearman's ρ: 0.205		 Age, sex, PCs(1-40) —
PPM001534 PGS000701
(snpnet.Urea)
 PSS000785|
South Asian Ancestry|
7,336 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Urea [mmol/L] — — R²: 0.15556
Spearman's ρ: 0.174		 Age, sex, PCs(1-40) —
PPM001569 PGS000701
(snpnet.Urea)
 PSS000786|
European Ancestry|
63,745 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Urea [mmol/L] — — R²: 0.15214
Spearman's ρ: 0.223		 Age, sex, PCs(1-40) —
PPM007430 PGS000701
(snpnet.Urea)
 PSS007116|
African Ancestry|
6,097 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Urea — — R²: 0.09637 [0.08274, 0.11001]
Incremental R2 (full-covars): 0.00328
PGS R2 (no covariates): 0.00567 [0.00203, 0.00931]		 age, sex, UKB array type, Genotype PCs —
PPM007431 PGS000701
(snpnet.Urea)
 PSS007117|
East Asian Ancestry|
1,614 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Urea — — R²: 0.12047 [0.09154, 0.1494]
Incremental R2 (full-covars): 0.00765
PGS R2 (no covariates): 0.01582 [0.00409, 0.02754]		 age, sex, UKB array type, Genotype PCs —
PPM007432 PGS000701
(snpnet.Urea)
 PSS007118|
European Ancestry|
23,752 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Urea — — R²: 0.10315 [0.096, 0.11031]
Incremental R2 (full-covars): 0.01247
PGS R2 (no covariates): 0.03634 [0.03178, 0.0409]		 age, sex, UKB array type, Genotype PCs —
PPM007433 PGS000701
(snpnet.Urea)
 PSS007119|
South Asian Ancestry|
7,427 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Urea — — R²: 0.11244 [0.09926, 0.12562]
Incremental R2 (full-covars): 0.00839
PGS R2 (no covariates): 0.02026 [0.01408, 0.02643]		 age, sex, UKB array type, Genotype PCs —
PPM007434 PGS000701
(snpnet.Urea)
 PSS007120|
European Ancestry|
64,425 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Urea — — R²: 0.08868 [0.08459, 0.09278]
Incremental R2 (full-covars): 0.0137
PGS R2 (no covariates): 0.04033 [0.03742, 0.04324]		 age, sex, UKB array type, Genotype 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
PSS000782 — — 6,015 individuals — African unspecified — UKB —
PSS000783 — — 1,080 individuals — East Asian — UKB —
PSS000784 — — 23,562 individuals — European Non-British White UKB —
PSS000785 — — 7,336 individuals — South Asian — UKB —
PSS000786 — — 63,745 individuals — European
(British)		 — UKB —
PSS007116 — — 6,097 individuals — African unspecified — UKB —
PSS007117 — — 1,614 individuals — East Asian — UKB —
PSS007118 — — 23,752 individuals — European non-white British ancestry UKB —
PSS007119 — — 7,427 individuals — South Asian — UKB —
PSS007120 — — 64,425 individuals — European white British ancestry UKB Testing cohort (heldout set)