Trait: serum gamma-glutamyl transferase measurement

Experimental Factor Ontology (EFO) Information
Identifier EFO_0004532
Description
  • Serum gamma-glutamyl transferase level measurement is the quantification of gamma-glutamyl transferase in blood. Gamma-glutamyl transferase is used as a marker for liver/bile duct problems and alcohol abuse.
Trait category
Liver enzyme measurement
Synonyms 4 synonyms
  • GGT measurement
  • Gamma gluatamyl transferase levels
  • Gamma glutamyl transpeptidase levels
  • gamma glutamyl transferase measurement
Mapped term(s) SNOMEDCT:313849004

Associated Polygenic Score(s)

Polygenic Score (PGS) ID PGS Name PGS Publication (PGP) ID Reported Trait Mapped Trait(s) (Ontology) Number of Variants PGS Scoring File (FTP Link)
PGS000683 snpnet.Gamma_glutamyltransferase PGP000128 Sinnott-Armstrong N et al. Nat Genet (2021) Gamma glutamyltransferase [U/L] serum gamma-glutamyl transferase measurement 17,323 http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000683/ScoringFiles/PGS000683.txt.gz - Check Terms/Licenses

PGS 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 ID) 		Evaluated Score PGS Sample Set ID
(PSS ID) 		Performance Source Trait PGS Effect Sizes
(per SD change) 		PGS Classification Metrics Other Metrics Covariates Included in the Model PGS Performance: Other Relevant Information
PPM001551 PGS000683
(snpnet.Gamma_glutamyltransferase)
 PSS000693 PGP000128 Sinnott-Armstrong N et al. (2021) Reported Trait: Gamma glutamyltransferase [U/L] — — R²: 0.24765
Spearman's ρ: 0.375		 Age, sex, PCs(1-40) —
PPM001516 PGS000683
(snpnet.Gamma_glutamyltransferase)
 PSS000692 PGP000128 Sinnott-Armstrong N et al. (2021) Reported Trait: Gamma glutamyltransferase [U/L] — — R²: 0.20072
Spearman's ρ: 0.338		 Age, sex, PCs(1-40) —
PPM001481 PGS000683
(snpnet.Gamma_glutamyltransferase)
 PSS000691 PGP000128 Sinnott-Armstrong N et al. (2021) Reported Trait: Gamma glutamyltransferase [U/L] — — R²: 0.26555
Spearman's ρ: 0.36		 Age, sex, PCs(1-40) —
PPM001446 PGS000683
(snpnet.Gamma_glutamyltransferase)
 PSS000690 PGP000128 Sinnott-Armstrong N et al. (2021) Reported Trait: Gamma glutamyltransferase [U/L] — — R²: 0.16131
Spearman's ρ: 0.33		 Age, sex, PCs(1-40) —
PPM001411 PGS000683
(snpnet.Gamma_glutamyltransferase)
 PSS000689 PGP000128 Sinnott-Armstrong N et al. (2021) Reported Trait: Gamma glutamyltransferase [U/L] — — R²: 0.12099
Spearman's ρ: 0.187		 Age, sex, PCs(1-40) —

Evaluated Samples

PGS Sample Set ID
(PSS ID) 		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
PSS000689 — — 6,015 individuals — African unspecified — UKB —
PSS000690 — — 1,081 individuals — East Asian — UKB —
PSS000691 — — 23,560 individuals — European Non-British White UKB —
PSS000692 — — 7,336 individuals — South Asian — UKB —
PSS000693 — — 63,756 individuals — European
(British)		 — UKB —