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 SNOMEDCT:313849004

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 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
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000683/ScoringFiles/PGS000683.txt.gz - Check Terms/Licenses
PGS000817
(GRS200_GGT)
PGP000201 |
Pazoki R et al. Nat Commun (2021)
Gamma-glutamyl transferase serum gamma-glutamyl transferase measurement 200
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000817/ScoringFiles/PGS000817.txt.gz
PGS001964
(portability-PLR_log_log_gammaGT)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Gamma glutamyltransferase serum gamma-glutamyl transferase measurement 76,069
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001964/ScoringFiles/PGS001964.txt.gz
PGS002182
(portability-ldpred2_log_log_gammaGT)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Gamma glutamyltransferase serum gamma-glutamyl transferase measurement 713,481
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002182/ScoringFiles/PGS002182.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
PPM001411 PGS000683
(snpnet.Gamma_glutamyltransferase)
PSS000689|
African Ancestry|
6,015 individuals
PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
Reported Trait: Gamma glutamyltransferase [U/L] : 0.12099
Spearman's ρ: 0.187
Age, sex, PCs(1-40)
PPM001446 PGS000683
(snpnet.Gamma_glutamyltransferase)
PSS000690|
East Asian Ancestry|
1,081 individuals
PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
Reported Trait: Gamma glutamyltransferase [U/L] : 0.16131
Spearman's ρ: 0.33
Age, sex, PCs(1-40)
PPM001481 PGS000683
(snpnet.Gamma_glutamyltransferase)
PSS000691|
European Ancestry|
23,560 individuals
PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
Reported Trait: Gamma glutamyltransferase [U/L] : 0.26555
Spearman's ρ: 0.36
Age, sex, PCs(1-40)
PPM001516 PGS000683
(snpnet.Gamma_glutamyltransferase)
PSS000692|
South Asian Ancestry|
7,336 individuals
PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
Reported Trait: Gamma glutamyltransferase [U/L] : 0.20072
Spearman's ρ: 0.338
Age, sex, PCs(1-40)
PPM001551 PGS000683
(snpnet.Gamma_glutamyltransferase)
PSS000693|
European Ancestry|
63,756 individuals
PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
Reported Trait: Gamma glutamyltransferase [U/L] : 0.24765
Spearman's ρ: 0.375
Age, sex, PCs(1-40)
PPM007340 PGS000683
(snpnet.Gamma_glutamyltransferase)
PSS007146|
African Ancestry|
6,097 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.
Reported Trait: Gamma glutamyltransferase : 0.03855 [0.02938, 0.04773]
Incremental R2 (full-covars): 0.00086
PGS R2 (no covariates): 0.01203 [0.00677, 0.0173]
age, sex, UKB array type, Genotype PCs
PPM007341 PGS000683
(snpnet.Gamma_glutamyltransferase)
PSS007147|
East Asian Ancestry|
1,614 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.
Reported Trait: Gamma glutamyltransferase : 0.03443 [0.01745, 0.05141]
Incremental R2 (full-covars): 0.0016
PGS R2 (no covariates): 0.02608 [0.01117, 0.04098]
age, sex, UKB array type, Genotype PCs
PPM007342 PGS000683
(snpnet.Gamma_glutamyltransferase)
PSS007148|
European Ancestry|
23,750 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.
Reported Trait: Gamma glutamyltransferase : 0.04954 [0.04429, 0.05479]
Incremental R2 (full-covars): 0.00169
PGS R2 (no covariates): 0.03621 [0.03165, 0.04076]
age, sex, UKB array type, Genotype PCs
PPM007343 PGS000683
(snpnet.Gamma_glutamyltransferase)
PSS007149|
South Asian Ancestry|
7,426 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.
Reported Trait: Gamma glutamyltransferase : 0.04001 [0.0315, 0.04851]
Incremental R2 (full-covars): 0.00185
PGS R2 (no covariates): 0.03716 [0.02894, 0.04538]
age, sex, UKB array type, Genotype PCs
PPM007344 PGS000683
(snpnet.Gamma_glutamyltransferase)
PSS007150|
European Ancestry|
64,433 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.
Reported Trait: Gamma glutamyltransferase : 0.03846 [0.03562, 0.04131]
Incremental R2 (full-covars): 0.00223
PGS R2 (no covariates): 0.05018 [0.04697, 0.05339]
age, sex, UKB array type, Genotype PCs
PPM002177 PGS000817
(GRS200_GGT)
PSS001062|
European Ancestry|
3,620 individuals
PGP000201 |
Pazoki R et al. Nat Commun (2021)
Reported Trait: Serum gamma-glutamyl transferase level OR: 1.96 [1.72, 2.19]
PPM002174 PGS000817
(GRS200_GGT)
PSS001061|
European Ancestry|
13,420 individuals
PGP000201 |
Pazoki R et al. Nat Commun (2021)
Reported Trait: Serum gamma-glutamyl transferase level β: 1.43 [1.35, 1.52] Unit of measurement = U/L in gamma-glutamyl transferase
PPM010587 PGS001964
(portability-PLR_log_log_gammaGT)
PSS009453|
European Ancestry|
18,990 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Gamma glutamyltransferase Partial Correlation (partial-r): 0.4046 [0.3926, 0.4164] sex, age, birth date, deprivation index, 16 PCs
PPM010589 PGS001964
(portability-PLR_log_log_gammaGT)
PSS008781|
European Ancestry|
6,321 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Gamma glutamyltransferase Partial Correlation (partial-r): 0.3709 [0.3494, 0.392] sex, age, birth date, deprivation index, 16 PCs
PPM010590 PGS001964
(portability-PLR_log_log_gammaGT)
PSS008555|
Greater Middle Eastern Ancestry|
1,124 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Gamma glutamyltransferase Partial Correlation (partial-r): 0.4245 [0.3749, 0.4717] sex, age, birth date, deprivation index, 16 PCs
PPM010591 PGS001964
(portability-PLR_log_log_gammaGT)
PSS008333|
South Asian Ancestry|
6,000 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Gamma glutamyltransferase Partial Correlation (partial-r): 0.3621 [0.3399, 0.3839] sex, age, birth date, deprivation index, 16 PCs
PPM010592 PGS001964
(portability-PLR_log_log_gammaGT)
PSS008110|
East Asian Ancestry|
1,716 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Gamma glutamyltransferase Partial Correlation (partial-r): 0.3412 [0.2984, 0.3825] sex, age, birth date, deprivation index, 16 PCs
PPM010593 PGS001964
(portability-PLR_log_log_gammaGT)
PSS007897|
African Ancestry|
2,344 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Gamma glutamyltransferase Partial Correlation (partial-r): 0.1377 [0.0976, 0.1774] sex, age, birth date, deprivation index, 16 PCs
PPM010594 PGS001964
(portability-PLR_log_log_gammaGT)
PSS009001|
African Ancestry|
3,654 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Gamma glutamyltransferase Partial Correlation (partial-r): 0.1235 [0.0913, 0.1554] sex, age, birth date, deprivation index, 16 PCs
PPM010588 PGS001964
(portability-PLR_log_log_gammaGT)
PSS009227|
European Ancestry|
3,948 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Gamma glutamyltransferase Partial Correlation (partial-r): 0.3675 [0.3401, 0.3942] sex, age, birth date, deprivation index, 16 PCs
PPM012303 PGS002182
(portability-ldpred2_log_log_gammaGT)
PSS009453|
European Ancestry|
18,990 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Gamma glutamyltransferase Partial Correlation (partial-r): 0.3999 [0.3879, 0.4118] sex, age, birth date, deprivation index, 16 PCs
PPM012304 PGS002182
(portability-ldpred2_log_log_gammaGT)
PSS009227|
European Ancestry|
3,948 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Gamma glutamyltransferase Partial Correlation (partial-r): 0.3606 [0.3331, 0.3875] sex, age, birth date, deprivation index, 16 PCs
PPM012305 PGS002182
(portability-ldpred2_log_log_gammaGT)
PSS008781|
European Ancestry|
6,321 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Gamma glutamyltransferase Partial Correlation (partial-r): 0.3639 [0.3423, 0.3851] sex, age, birth date, deprivation index, 16 PCs
PPM012306 PGS002182
(portability-ldpred2_log_log_gammaGT)
PSS008555|
Greater Middle Eastern Ancestry|
1,124 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Gamma glutamyltransferase Partial Correlation (partial-r): 0.4225 [0.3728, 0.4698] sex, age, birth date, deprivation index, 16 PCs
PPM012307 PGS002182
(portability-ldpred2_log_log_gammaGT)
PSS008333|
South Asian Ancestry|
6,000 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Gamma glutamyltransferase Partial Correlation (partial-r): 0.3609 [0.3387, 0.3828] sex, age, birth date, deprivation index, 16 PCs
PPM012308 PGS002182
(portability-ldpred2_log_log_gammaGT)
PSS008110|
East Asian Ancestry|
1,716 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Gamma glutamyltransferase Partial Correlation (partial-r): 0.3316 [0.2886, 0.3733] sex, age, birth date, deprivation index, 16 PCs
PPM012309 PGS002182
(portability-ldpred2_log_log_gammaGT)
PSS007897|
African Ancestry|
2,344 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Gamma glutamyltransferase Partial Correlation (partial-r): 0.1412 [0.1011, 0.1808] sex, age, birth date, deprivation index, 16 PCs
PPM012310 PGS002182
(portability-ldpred2_log_log_gammaGT)
PSS009001|
African Ancestry|
3,654 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Gamma glutamyltransferase Partial Correlation (partial-r): 0.1247 [0.0926, 0.1566] 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
PSS008781 6,321 individuals European Italy (South Europe) UKB
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
PSS007897 2,344 individuals African American or Afro-Caribbean Carribean UKB
PSS008555 1,124 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS009453 18,990 individuals European UK (+ Ireland) UKB
PSS007146 6,097 individuals African unspecified UKB
PSS007147 1,614 individuals East Asian UKB
PSS007148 23,750 individuals European non-white British ancestry UKB
PSS007149 7,426 individuals South Asian UKB
PSS007150 64,433 individuals European white British ancestry UKB Testing cohort (heldout set)
PSS009227 3,948 individuals European Poland (NE Europe) UKB
PSS008333 6,000 individuals South Asian India (South Asia) UKB
PSS009001 3,654 individuals African unspecified Nigeria (West Africa) UKB
PSS001061 The serum concentration of gamma-glutamyl transferase (GGT) was measured from stored blood samples using the enzymatic rate analytical method on a Beckman Coulter AU5800. The manufacturer’s analytic range for ALT was 3–500 U/L, for ALP, 5–1500 U/L, and it was 5–1200 U/L for GGT. 13,420 individuals European Airwave
PSS008110 1,716 individuals East Asian China (East Asia) UKB
PSS001062 Serum concentrations of alanine transaminase (ALT), alkaline phosphatase (ALP), and gamma-glutamyl transferase (GGT) were measured from stored blood samples using the enzymatic rate analytical method on a Beckman Coulter AU5800. The manufacturer’s analytic range for ALT was 3–500 U/L, for ALP, 5–1500 U/L, and it was 5–1200 U/L for GGT. 3,620 individuals European NFBC