Polygenic Score (PGS) ID: PGS002113

Predicted Trait
Reported Trait Depression possibly related to stressful or traumatic event
Mapped Trait(s)
Additional Trait Information psychiatric disorders
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_depression_stress_trauma
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 545,334
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
PPM011760 PSS009170|
European Ancestry|
741 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Depression possibly related to stressful or traumatic event — — Partial Correlation (partial-r): 0.0272 [-0.0459, 0.1001] sex, age, birth date, deprivation index, 16 PCs —
PPM011759 PSS009396|
European Ancestry|
3,597 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Depression possibly related to stressful or traumatic event — — Partial Correlation (partial-r): 0.0378 [0.005, 0.0705] sex, age, birth date, deprivation index, 16 PCs —
PPM011761 PSS008724|
European Ancestry|
1,364 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Depression possibly related to stressful or traumatic event — — Partial Correlation (partial-r): 0.0391 [-0.0144, 0.0924] sex, age, birth date, deprivation index, 16 PCs —
PPM011762 PSS008498|
Greater Middle Eastern Ancestry|
100 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Depression possibly related to stressful or traumatic event — — Partial Correlation (partial-r): -0.0739 [-0.2889, 0.1482] sex, age, birth date, deprivation index, 16 PCs —
PPM011763 PSS008276|
South Asian Ancestry|
425 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Depression possibly related to stressful or traumatic event — — Partial Correlation (partial-r): 0.1438 [0.0471, 0.238] sex, age, birth date, deprivation index, 16 PCs —
PPM011764 PSS008053|
East Asian Ancestry|
215 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Depression possibly related to stressful or traumatic event — — Partial Correlation (partial-r): 0.0141 [-0.1267, 0.1543] sex, age, birth date, deprivation index, 16 PCs —
PPM011765 PSS007840|
African Ancestry|
215 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Depression possibly related to stressful or traumatic event — — Partial Correlation (partial-r): -0.0269 [-0.1668, 0.114] sex, age, birth date, deprivation index, 16 PCs —
PPM011766 PSS008944|
African Ancestry|
214 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Depression possibly related to stressful or traumatic event — — Partial Correlation (partial-r): -0.0334 [-0.1734, 0.108] 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
PSS008944 — — 214 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008498 — — 100 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009170 — — 741 individuals — European Poland (NE Europe) UKB —
PSS009396 — — 3,597 individuals — European UK (+ Ireland) UKB —
PSS008724 — — 1,364 individuals — European Italy (South Europe) UKB —
PSS008276 — — 425 individuals — South Asian India (South Asia) UKB —
PSS008053 — — 215 individuals — East Asian China (East Asia) UKB —
PSS007840 — — 215 individuals — African American or Afro-Caribbean Carribean UKB —