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
Other 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
GWAS
Dev
Eval
 Scoring File (FTP Link)
PGS000683
(snpnet.Gamma_glutamyltransferase)
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Gamma-glutamyl transferase [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-glutamyl transferase 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-glutamyl transferase serum gamma-glutamyl transferase measurement 713,481
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002182/ScoringFiles/PGS002182.txt.gz
PGS003344
(CVGRS_GGT)
 PGP000405 |
Kim YJ et al. Nat Commun (2022)
 Gamma-glutamyl transferase serum gamma-glutamyl transferase measurement 82
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003344/ScoringFiles/PGS003344.txt.gz
PGS003543
(cont-decay-log_log_gammaGT)
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Gamma-glutamyl transferase serum gamma-glutamyl transferase measurement 979,739
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003543/ScoringFiles/PGS003543.txt.gz
PGS004336
(X30730.score)
 PGP000561 |
Jung H et al. Commun Biol (2024)
 Gamma glutamyltransferase (U/L) serum gamma-glutamyl transferase measurement 1,059,939
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS004336/ScoringFiles/PGS004336.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] — — R²: 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] — — R²: 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] — — R²: 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] — — R²: 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] — — R²: 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 — — R²: 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 — — R²: 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 — — R²: 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 — — R²: 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 — — R²: 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 —
PPM016183 PGS003344
(CVGRS_GGT)
 PSS010055|
East Asian Ancestry|
22,608 individuals
 PGP000405 |
Kim YJ et al. Nat Commun (2022)
 Reported Trait: Gamma glutamyl transferase level β: 0.24364 — — — —
PPM016200 PGS003344
(CVGRS_GGT)
 PSS010055|
East Asian Ancestry|
22,608 individuals
 PGP000405 |
Kim YJ et al. Nat Commun (2022)
 Reported Trait: Type 2 diabetes OR: 1.04096 — — — —
PPM017471 PGS003543
(cont-decay-log_log_gammaGT)
 PSS010908|
European Ancestry|
19,107 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Gamma glutamyltransferase — — partial-R2: 0.15 sex, age, deprivation index, PC1-16 —
PPM017639 PGS003543
(cont-decay-log_log_gammaGT)
 PSS010656|
European Ancestry|
6,170 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Gamma glutamyltransferase — — partial-R2: 0.13 sex, age, deprivation index, PC1-16 —
PPM017723 PGS003543
(cont-decay-log_log_gammaGT)
 PSS010572|
Greater Middle Eastern Ancestry|
1,095 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Gamma glutamyltransferase — — partial-R2: 0.18 sex, age, deprivation index, PC1-16 —
PPM017807 PGS003543
(cont-decay-log_log_gammaGT)
 PSS010236|
European Ancestry|
2,237 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Gamma glutamyltransferase — — partial-R2: 0.14 sex, age, deprivation index, PC1-16 —
PPM017891 PGS003543
(cont-decay-log_log_gammaGT)
 PSS010488|
South Asian Ancestry|
5,946 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Gamma glutamyltransferase — — partial-R2: 0.12 sex, age, deprivation index, PC1-16 —
PPM017975 PGS003543
(cont-decay-log_log_gammaGT)
 PSS010404|
East Asian Ancestry|
1,705 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Gamma glutamyltransferase — — partial-R2: 0.11 sex, age, deprivation index, PC1-16 —
PPM018059 PGS003543
(cont-decay-log_log_gammaGT)
 PSS010320|
African Ancestry|
2,332 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Gamma glutamyltransferase — — partial-R2: 0.02 sex, age, deprivation index, PC1-16 —
PPM018143 PGS003543
(cont-decay-log_log_gammaGT)
 PSS010740|
African Ancestry|
3,625 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Gamma glutamyltransferase — — partial-R2: 0.02 sex, age, deprivation index, PC1-16 —
PPM017555 PGS003543
(cont-decay-log_log_gammaGT)
 PSS010824|
European Ancestry|
3,937 individuals
 PGP000457 |
Ding Y et al. bioRxiv (2022)
|Pre		 Reported Trait: Gamma glutamyltransferase — — partial-R2: 0.13 sex, age, deprivation index, PC1-16 —
PPM020451 PGS004336
(X30730.score)
 PSS011364|
European Ancestry|
56,192 individuals
 PGP000561 |
Jung H et al. Commun Biol (2024)
 Reported Trait: Gamma glutamyltransferase (U/L) — — PGS R2 (no covariates): 0.25324 — —

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
PSS010656 — — 6,170 individuals,
45.0 % Male samples
 Mean = 54.5 years
Sd = 8.4 years		 European Italian UKB —
PSS010404 — — 1,705 individuals,
33.0 % Male samples
 Mean = 52.4 years
Sd = 7.8 years		 East Asian Chinese UKB —
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 —
PSS010055 — — 22,608 individuals — East Asian — KBA, KoGES —
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 —
PSS010824 — — 3,937 individuals,
38.0 % Male samples
 Mean = 54.4 years
Sd = 7.5 years		 European Polish 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)
PSS010572 — — 1,095 individuals,
60.0 % Male samples
 Mean = 51.9 years
Sd = 8.0 years		 Greater Middle Eastern (Middle Eastern, North African or Persian) Iranian UKB —
PSS010320 — — 2,332 individuals,
37.0 % Male samples
 Mean = 52.5 years
Sd = 8.1 years		 African American or Afro-Caribbean Caribbean UKB —
PSS009227 — — 3,948 individuals — European Poland (NE Europe) UKB —
PSS008333 — — 6,000 individuals — South Asian India (South Asia) UKB —
PSS010740 — — 3,625 individuals,
46.0 % Male samples
 Mean = 51.9 years
Sd = 8.1 years		 African unspecified Nigerian UKB —
PSS010488 — — 5,946 individuals,
54.0 % Male samples
 Mean = 53.3 years
Sd = 8.4 years		 South Asian Indian UKB —
PSS011364 — — 56,192 individuals — European — UKB —
PSS010236 — — 2,237 individuals,
45.0 % Male samples
 Mean = 58.1 years
Sd = 7.1 years		 European Ashkenazi 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 —
PSS010908 — — 19,107 individuals,
46.0 % Male samples
 Mean = 56.9 years
Sd = 7.9 years		 European white British UKB —