Polygenic Score (PGS) ID: PGS002159

Predicted Trait
Reported Trait Aspartate aminotransferase level
Mapped Trait(s) aspartate aminotransferase measurement (EFO_0004736)
Additional Trait Information biological measures
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_log_AST
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 716,914
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000263
Citation (link to publication) Privé F et al. Am J Hum Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
391,124 individuals (100%)
PGS Evaluation
European: 37.5%
African: 25%
East Asian: 12.5%
Greater Middle Eastern: 12.5%
South Asian: 12.5%
8 Sample Sets

Development Samples

Score Development/Training
Study Identifiers Sample Numbers Sample Ancestry Cohort(s) Phenotype Definitions & Methods Age of Study Participants Participant Follow-up Time Additional Ancestry Description Additional Sample/Cohort Information
— 391,124 individuals European UKB — — — UK (+ Ireland) —

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) 		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
PPM012119 PSS009428|
European Ancestry|
18,929 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Aspartate aminotransferase — — Partial Correlation (partial-r): 0.2679 [0.2546, 0.2811] sex, age, birth date, deprivation index, 16 PCs —
PPM012120 PSS009202|
European Ancestry|
3,933 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Aspartate aminotransferase — — Partial Correlation (partial-r): 0.2333 [0.2034, 0.2627] sex, age, birth date, deprivation index, 16 PCs —
PPM012121 PSS008756|
European Ancestry|
6,307 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Aspartate aminotransferase — — Partial Correlation (partial-r): 0.2564 [0.2332, 0.2794] sex, age, birth date, deprivation index, 16 PCs —
PPM012122 PSS008530|
Greater Middle Eastern Ancestry|
1,124 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Aspartate aminotransferase — — Partial Correlation (partial-r): 0.2194 [0.1625, 0.2749] sex, age, birth date, deprivation index, 16 PCs —
PPM012123 PSS008308|
South Asian Ancestry|
5,980 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Aspartate aminotransferase — — Partial Correlation (partial-r): 0.2225 [0.1982, 0.2465] sex, age, birth date, deprivation index, 16 PCs —
PPM012125 PSS007872|
African Ancestry|
2,330 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Aspartate aminotransferase — — Partial Correlation (partial-r): 0.1083 [0.0678, 0.1484] sex, age, birth date, deprivation index, 16 PCs —
PPM012126 PSS008976|
African Ancestry|
3,640 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Aspartate aminotransferase — — Partial Correlation (partial-r): 0.0633 [0.0308, 0.0957] sex, age, birth date, deprivation index, 16 PCs —
PPM012124 PSS008085|
East Asian Ancestry|
1,703 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Aspartate aminotransferase — — Partial Correlation (partial-r): 0.183 [0.1364, 0.2288] 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
PSS008976 — — 3,640 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008530 — — 1,124 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009202 — — 3,933 individuals — European Poland (NE Europe) UKB —
PSS009428 — — 18,929 individuals — European UK (+ Ireland) UKB —
PSS008756 — — 6,307 individuals — European Italy (South Europe) UKB —
PSS008308 — — 5,980 individuals — South Asian India (South Asia) UKB —
PSS008085 — — 1,703 individuals — East Asian China (East Asia) UKB —
PSS007872 — — 2,330 individuals — African American or Afro-Caribbean Carribean UKB —