Polygenic Score (PGS) ID: PGS002205

Predicted Trait
Reported Trait Testosterone (male only)
Mapped Trait(s)
Additional Trait Information biological measures
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_M_log_testosterone
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 584,991
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
PPM012487 PSS009380|
European Ancestry|
7,947 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Testosterone (male only) — — Partial Correlation (partial-r): 0.1503 [0.1287, 0.1717] sex, age, birth date, deprivation index, 16 PCs —
PPM012488 PSS009154|
European Ancestry|
1,666 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Testosterone (male only) — — Partial Correlation (partial-r): 0.1423 [0.0946, 0.1893] sex, age, birth date, deprivation index, 16 PCs —
PPM012489 PSS008708|
European Ancestry|
2,641 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Testosterone (male only) — — Partial Correlation (partial-r): 0.1259 [0.088, 0.1634] sex, age, birth date, deprivation index, 16 PCs —
PPM012490 PSS008482|
Greater Middle Eastern Ancestry|
485 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Testosterone (male only) — — Partial Correlation (partial-r): 0.1526 [0.0626, 0.2402] sex, age, birth date, deprivation index, 16 PCs —
PPM012491 PSS008260|
South Asian Ancestry|
2,486 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Testosterone (male only) — — Partial Correlation (partial-r): 0.1129 [0.0737, 0.1517] sex, age, birth date, deprivation index, 16 PCs —
PPM012492 PSS008038|
East Asian Ancestry|
742 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Testosterone (male only) — — Partial Correlation (partial-r): 0.0935 [0.0207, 0.1654] sex, age, birth date, deprivation index, 16 PCs —
PPM012494 PSS008928|
African Ancestry|
1,551 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Testosterone (male only) — — Partial Correlation (partial-r): 0.0302 [-0.0199, 0.0802] sex, age, birth date, deprivation index, 16 PCs —
PPM012493 PSS007824|
African Ancestry|
973 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Testosterone (male only) — — Partial Correlation (partial-r): 0.0603 [-0.0033, 0.1233] 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
PSS009380 — — 7,947 individuals — European UK (+ Ireland) UKB —
PSS008708 — — 2,641 individuals — European Italy (South Europe) UKB —
PSS008260 — — 2,486 individuals — South Asian India (South Asia) UKB —
PSS008038 — — 742 individuals — East Asian China (East Asia) UKB —
PSS007824 — — 973 individuals — African American or Afro-Caribbean Carribean UKB —
PSS009154 — — 1,666 individuals — European Poland (NE Europe) UKB —
PSS008928 — — 1,551 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008482 — — 485 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —