Polygenic Score (PGS) ID: PGS003579

Predicted Trait
Reported Trait Major Depressive Disorder (Lifetime)
Mapped Trait(s) major depressive disorder (MONDO_0002009)
Additional Trait Information MTAG results on LifetimeMDD with inputs LifetimeMDD, GPpsy, Psypsy, DepAll, SelfRepDep, ICD10Dep (as described in paper, refer to Fig 4)
Released in PGS Catalog: April 12, 2023
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Terms and Licenses
PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name MTAG.AllDep.LifetimeMDD
Development Method
Name PRSice-2
Parameters "--clump-kb 250kb --clump-p 1.000000 --clump-r2 0.100000 --base-maf freq:0.05"
Variants
Original Genome Build GRCh37
Number of Variants 4,786,322
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000461
Citation (link to publication) Dahl A et al. bioRxiv (2022) Preprint
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
224,871 individuals (100%)
Score Development/Training
European: 100%
67,164 individuals (100%)
PGS Evaluation
European: 40%
African: 20%
Additional Asian Ancestries: 20%
Hispanic or Latin American: 10%
East Asian: 10%
10 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
224,871 individuals European
(British)		 UKB
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
—
[
  • 16,297 cases
  • , 50,867 controls
]
 European
(British)		 UKB — Range = [37.0, 74.0] years — white-British within sample evaluation

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
PPM018250 PSS010946|
African Ancestry|
1,158 individuals
 PGP000461 |
Dahl A et al. bioRxiv (2022)
|Pre		 Reported Trait: Major depressive disorder — — R²: 0.00955 PCs 1-10 —
PPM018251 PSS010947|
Additional Asian Ancestries|
1,996 individuals
 PGP000461 |
Dahl A et al. bioRxiv (2022)
|Pre		 Reported Trait: Major depressive disorder — — R²: 0.02257 PCs 1-10 —
PPM018253 PSS010949|
Hispanic or Latin American Ancestry|
2,454 individuals
 PGP000461 |
Dahl A et al. bioRxiv (2022)
|Pre		 Reported Trait: Major depressive disorder — — R²: 0.0115 PCs 1-10 —
PPM018254 PSS010950|
East Asian Ancestry|
10,502 individuals
 PGP000461 |
Dahl A et al. bioRxiv (2022)
|Pre		 Reported Trait: Major depressive disorder — — R²: 0.01013 PCs 1-10 —
PPM018255 PSS010954|
European Ancestry|
42,250 individuals
 PGP000461 |
Dahl A et al. bioRxiv (2022)
|Pre		 Reported Trait: Major depressive disorder — — R²: 0.0204 PCs 1-10 —
PPM018256 PSS010955|
European Ancestry|
23,351 individuals
 PGP000461 |
Dahl A et al. bioRxiv (2022)
|Pre		 Reported Trait: Major depressive disorder — — R²: 0.0155 PCs 1-10 —
PPM018257 PSS010951|
African Ancestry|
687 individuals
 PGP000461 |
Dahl A et al. bioRxiv (2022)
|Pre		 Reported Trait: Major depressive disorder — — R²: 0.01754 PCs 1-20 —
PPM018258 PSS010952|
Additional Asian Ancestries|
334 individuals
 PGP000461 |
Dahl A et al. bioRxiv (2022)
|Pre		 Reported Trait: Major depressive disorder — — R²: 0.01951 PCs 1-20 —
PPM018259 PSS010953|
European Ancestry|
10,193 individuals
 PGP000461 |
Dahl A et al. bioRxiv (2022)
|Pre		 Reported Trait: Major depressive disorder — — R²: 0.01771 PCs 1-20 —
PPM018252 PSS010948|
European Ancestry|
14,388 individuals
 PGP000461 |
Dahl A et al. bioRxiv (2022)
|Pre		 Reported Trait: Major depressive disorder — — R²: 0.00435 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
PSS010946 — —
[
  • 90 cases
  • , 1,068 controls
]
 Range = [18.0, 86.0] years African unspecified
(Black)		 — UCLA —
PSS010947 — —
[
  • 91 cases
  • , 1,905 controls
]
 Range = [18.0, 86.0] years Asian unspecified
(Asian)		 — UCLA —
PSS010948 — —
[
  • 1,428 cases
  • , 12,960 controls
]
 Range = [18.0, 86.0] years European — UCLA —
PSS010949 — —
[
  • 199 cases
  • , 2,255 controls
]
 Range = [18.0, 86.0] years Hispanic or Latin American
(Latino)		 — UCLA —
PSS010950 — —
[
  • 5,282 cases
  • , 5,220 controls
]
 Range = [30.0, 60.0] years East Asian
(Han Chinese)		 — CONVERGE —
PSS010951 — —
[
  • 122 cases
  • , 565 controls
]
 Range = [37.0, 74.0] years African unspecified
(African)		 — UKB —
PSS010952 — —
[
  • 62 cases
  • , 272 controls
]
 Range = [37.0, 74.0] years Asian unspecified
(Asian)		 — UKB —
PSS010953 — —
[
  • 2,741 cases
  • , 7,452 controls
]
 Range = [37.0, 74.0] years European — UKB —
PSS010954 — —
[
  • 18,879 cases
  • , 23,371 controls
]
 Range = [8.0, 32.0] years European
(Danish)		 — iPSYCH —
PSS010955 — —
[
  • 8,188 cases
  • , 15,163 controls
]
 Range = [8.0, 35.0] years European
(Danish)		 — iPSYCH —