Polygenic Score (PGS) ID: PGS004885

Predicted Trait
Reported Trait Major depressive disorder
Mapped Trait(s) major depressive disorder (MONDO_0002009)
Released in PGS Catalog: June 27, 2024
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Score Details

Score Construction
PGS Name INTERVENE_MegaPRS_MDD
Development Method
Name megaprs.auto
Parameters lasso-shrink
Variants
Original Genome Build GRCh37
Number of Variants 801,544
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000618
Citation (link to publication) Jermy B et al. Nat Commun (2024)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
480,359 individuals (100%)
Score Development/Training
European: 100%
404 individuals (100%)
PGS Evaluation
European: 100%
7 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST005839
Europe PMC: 29700475
 480,359 individuals European NR
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
— 404 individuals European 1000G — — — non-Finnish Europeans —

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
PPM021252 PSS011614|
European Ancestry|
37,136 individuals
 PGP000618 |
Jermy B et al. Nat Commun (2024)
 Reported Trait: Incident MDD HR: 1.18 [1.16, 1.2] C-index: 0.56 [0.55, 0.56] — PCs 1-10 —
PPM021253 PSS011613|
European Ancestry|
69,715 individuals
 PGP000618 |
Jermy B et al. Nat Commun (2024)
 Reported Trait: Incident MDD HR: 1.27 [1.23, 1.31] C-index: 0.57 [0.56, 0.58] — PCs 1-10 —
PPM021254 PSS011612|
European Ancestry|
29,427 individuals
 PGP000618 |
Jermy B et al. Nat Commun (2024)
 Reported Trait: Incident MDD HR: 1.27 [1.23, 1.32] C-index: 0.58 [0.57, 0.59] — PCs 1-10 —
PPM021255 PSS011610|
European Ancestry|
44,188 individuals
 PGP000618 |
Jermy B et al. Nat Commun (2024)
 Reported Trait: Incident MDD HR: 1.17 [1.12, 1.22] — — PCs 1-10 —
PPM021256 PSS011611|
European Ancestry|
7,018 individuals
 PGP000618 |
Jermy B et al. Nat Commun (2024)
 Reported Trait: Incident MDD HR: 1.36 [1.21, 1.53] C-index: 0.62 [0.58, 0.65] — PCs 1-10 —
PPM021257 PSS011609|
European Ancestry|
412,090 individuals
 PGP000618 |
Jermy B et al. Nat Commun (2024)
 Reported Trait: Incident MDD HR: 1.24 [1.23, 1.25] C-index: 0.58 [0.58, 0.58] — PCs 1-10 —
PPM021258 PSS011608|
European Ancestry|
199,868 individuals
 PGP000618 |
Jermy B et al. Nat Commun (2024)
 Reported Trait: Incident MDD HR: 1.15 [1.14, 1.16] C-index: 0.55 [0.55, 0.55] — PCs 1-10 —

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
PSS011613 — —
[
  • 4,671 cases
  • , 65,044 controls
]
 — European — HUNT —
PSS011614 — —
[
  • 12,774 cases
  • , 24,362 controls
]
 — European — MGBB —
PSS011608 — —
[
  • 51,443 cases
  • , 148,425 controls
]
 — European — EB —
PSS011609 — —
[
  • 46,909 cases
  • , 365,181 controls
]
 — European — FinnGen —
PSS011610 — —
[
  • 2,526 cases
  • , 41,662 controls
]
 — European — G&H —
PSS011611 — —
[
  • 273 cases
  • , 6,745 controls
]
 — European — GS:SFHS —
PSS011612 — —
[
  • 3,349 cases
  • , 26,078 controls
]
 — European — GEL —