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: April 29, 2020

Score Details

Score Construction
PGS Name DepAll
Variants
Original Genome Build NR
Number of Variants 21,908
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)
PGS Source
PGS Catalog Publication (PGP) ID PGP000068
Citation (link to publication) Cai N et al. Nat Genet (2020)

Contributing Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry
EuropePMC: 32231276.0
[
  • 21,177 cases
  • , 59,398 controls
]
European

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 ID)
PGS Sample Set ID
(PSS ID)
Performance Source Trait PGS Effect Sizes
(per SD change)
PGS Classification Metrics Other Metrics Covariates Included in the Model PGS Performance: Other Relevant Information
PPM000434 PSS000250 PGP000068
Cai N et al. (2020)
Reported Trait: Major Depressive Disorder status AUROC: 0.5333024 : 0.004918643 Cohort

Evaluated Samples

PGS Sample Set ID
(PSS ID)
Detailed Phenotype Description 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)