Polygenic Score (PGS) ID: PGS000142

Predicted Trait
Reported Trait Probable Depression (low mood or anhedonia, and seen a GP or psychiatrist for nerves, anxiety, tension or depression)
Mapped Trait(s)
Released in PGS Catalog: April 29, 2020
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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 DepAll
Development Method
Name LD-clumping and p-value thresholding (Ricopilli)
Parameters Clumping r2 < 0.1. Scores provided at a p-value threshold = 0.1 (LD-clumped summary statistics require to calculate the score at other threshold are linked in GWAS sample descriptions)
Variants
Original Genome Build NR
Number of Variants 21,908
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000068
Citation (link to publication) Cai N et al. Nat Genet (2020)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
80,575 individuals (100%)
PGS Evaluation
European: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
Europe PMC: 32231276
[
  • 21,177 cases
  • , 59,398 controls
]
European UKB

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
PPM000434 PSS000250|
European Ancestry|
36,709 individuals
PGP000068 |
Cai N et al. Nat Genet (2020)
Reported Trait: Major Depressive Disorder status AUROC: 0.5333 : 0.00492 Cohort

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
PSS000250
[
  • 14,696 cases
  • , 22,013 controls
]
European 15 cohorts
  • BOMA
  • ,CoLaus
  • ,Edinburgh
  • ,GenPOD
  • ,GenRED
  • ,MARS
  • ,MPIP
  • ,NESDA
  • ,QIMR
  • ,RADIANT
  • ,RS
  • ,SHIP
  • ,STAR*D
  • ,TwinGene
  • ,i2b2
Part of PGC29 (PMID: 29700475)