Trait: seeing a general practitioner for nerves, anxiety, tension or depression, self-reported

Experimental Factor Ontology (EFO) Information
Identifier EFO_0009820
Description Seeing a general practitioner for nerves, anxiety, tension or depression, as reported by an individual.
Trait category
Other trait

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
Display options:
Ancestry legend
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Multi-ancestry (excluding European)
African
East Asian
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Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported
Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution
GWAS
Dev
Eval
 Scoring File (FTP Link)
PGS000140
(GPpsy)
 PGP000068 |
Cai N et al. Nat Genet (2020)
 Broad Depression (seen a General Practitioner for nerves, anxiety, tension or depression) seeing a general practitioner for nerves, anxiety, tension or depression, self-reported,
depressive disorder		 24,665
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000140/ScoringFiles/PGS000140.txt.gz
PGS000142
(DepAll)
 PGP000068 |
Cai N et al. Nat Genet (2020)
 Probable Depression (low mood or anhedonia, and seen a GP or psychiatrist for nerves, anxiety, tension or depression) seeing a general practitioner for nerves, anxiety, tension or depression, self-reported,
seeing a psychiatrist for nerves, anxiety, tension or depression, self-reported,
depressive disorder		 21,908
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000142/ScoringFiles/PGS000142.txt.gz
PGS000143
(GPNoDep)
 PGP000068 |
Cai N et al. Nat Genet (2020)
 Seen a General Practitioner for nerves, anxiety, tension or depression (without report of low mood or anhedonia) seeing a general practitioner for nerves, anxiety, tension or depression, self-reported 21,042
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000143/ScoringFiles/PGS000143.txt.gz

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) 		Evaluated Score 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
PPM000432 PGS000140
(GPpsy)
 PSS000250|
European Ancestry|
36,709 individuals
 PGP000068 |
Cai N et al. Nat Genet (2020)
 Reported Trait: Major Depressive Disorder status — AUROC: 0.53193 R²: 0.00481 Cohort —
PPM000434 PGS000142
(DepAll)
 PSS000250|
European Ancestry|
36,709 individuals
 PGP000068 |
Cai N et al. Nat Genet (2020)
 Reported Trait: Major Depressive Disorder status — AUROC: 0.5333 R²: 0.00492 Cohort —
PPM000435 PGS000143
(GPNoDep)
 PSS000250|
European Ancestry|
36,709 individuals
 PGP000068 |
Cai N et al. Nat Genet (2020)
 Reported Trait: Major Depressive Disorder status — AUROC: 0.53441 R²: 0.00471 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)