Polygenic Score (PGS) ID: PGS002112

Predicted Trait
Reported Trait Recent feelings of depression
Mapped Trait(s) depressive symptom measurement (EFO_0007006)
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_feelings
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 748,601
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
PPM011753 PSS008723|
European Ancestry|
2,249 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Recent feelings of depression — — Partial Correlation (partial-r): 0.0477 [0.0062, 0.089] sex, age, birth date, deprivation index, 16 PCs —
PPM011751 PSS009395|
European Ancestry|
6,438 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Recent feelings of depression — — Partial Correlation (partial-r): 0.0692 [0.0448, 0.0935] sex, age, birth date, deprivation index, 16 PCs —
PPM011752 PSS009169|
European Ancestry|
1,240 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Recent feelings of depression — — Partial Correlation (partial-r): 0.0846 [0.0286, 0.1401] sex, age, birth date, deprivation index, 16 PCs —
PPM011754 PSS008497|
Greater Middle Eastern Ancestry|
201 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Recent feelings of depression — — Partial Correlation (partial-r): 0.1366 [-0.0094, 0.277] sex, age, birth date, deprivation index, 16 PCs —
PPM011755 PSS008275|
South Asian Ancestry|
813 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Recent feelings of depression — — Partial Correlation (partial-r): 0.0591 [-0.0105, 0.1282] sex, age, birth date, deprivation index, 16 PCs —
PPM011756 PSS008052|
East Asian Ancestry|
424 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Recent feelings of depression — — Partial Correlation (partial-r): -0.0078 [-0.1053, 0.0898] sex, age, birth date, deprivation index, 16 PCs —
PPM011757 PSS007839|
African Ancestry|
371 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Recent feelings of depression — — Partial Correlation (partial-r): -0.0278 [-0.1321, 0.0771] sex, age, birth date, deprivation index, 16 PCs —
PPM011758 PSS008943|
African Ancestry|
510 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Recent feelings of depression — — Partial Correlation (partial-r): 0.0623 [-0.0264, 0.1501] 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
PSS008943 — — 510 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008497 — — 201 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009169 — — 1,240 individuals — European Poland (NE Europe) UKB —
PSS008275 — — 813 individuals — South Asian India (South Asia) UKB —
PSS009395 — — 6,438 individuals — European UK (+ Ireland) UKB —
PSS008723 — — 2,249 individuals — European Italy (South Europe) UKB —
PSS008052 — — 424 individuals — East Asian China (East Asia) UKB —
PSS007839 — — 371 individuals — African American or Afro-Caribbean Carribean UKB —