| Publication Information (EuropePMC) | |
| Title | Minimal phenotyping yields genome-wide association signals of low specificity for major depression. |
| PubMed ID | 32231276(Europe PMC) |
| doi | 10.1038/s41588-020-0594-5 |
| Publication Date | March 30, 2020 |
| Journal | Nat Genet |
| Author(s) | Cai N, Revez JA, Adams MJ, Andlauer TFM, Breen G, Byrne EM, Clarke TK, Forstner AJ, Grabe HJ, Hamilton SP, Levinson DF, Lewis CM, Lewis G, Martin NG, Milaneschi Y, Mors O, Müller-Myhsok B, Penninx BWJH, Perlis RH, Pistis G, Potash JB, Preisig M, Shi J, Smoller JW, Streit F, Tiemeier H, Uher R, Van der Auwera S, Viktorin A, Weissman MM, MDD Working Group of the Psychiatric Genomics Consortium, Kendler KS, Flint J. |
| Polygenic Score (PGS) ID | PGS Name | PGS Publication (PGP) ID | Reported Trait | Mapped Trait(s) (Ontology) | Number of Variants | PGS Scoring File (FTP Link) |
|---|---|---|---|---|---|---|
| PGS000138 | LifetimeMDD | PGP000068 Cai N et al. Nat Genet (2020) |
Lifetime Major Depressive Disorder | major depressive disorder | 22,274 | http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000138/ScoringFiles/PGS000138.txt.gz |
| PGS000139 | MDDRecur | PGP000068 Cai N et al. Nat Genet (2020) |
Lifetime Major Depressive Disorder (with recurrence) | major depressive disorder recurrent |
21,980 | http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000139/ScoringFiles/PGS000139.txt.gz |
| PGS000141 | Psypsy | PGP000068 Cai N et al. Nat Genet (2020) |
Seen a psychiatrist for nerves, anxiety, tension or depression | seeing a psychiatrist for nerves, anxiety, tension or depression, self-reported depressive disorder |
22,728 | http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000141/ScoringFiles/PGS000141.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 | http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000142/ScoringFiles/PGS000142.txt.gz |
| PGS000144 | SelfRepDep | PGP000068 Cai N et al. Nat Genet (2020) |
Self-reported depression or depression symptoms | self-reported trait depressive symptom measurement |
21,828 | http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000144/ScoringFiles/PGS000144.txt.gz |
| PGS000145 | ICD10Dep | PGP000068 Cai N et al. Nat Genet (2020) |
Depression (ICD-10 defined) | major depressive disorder | 21,510 | http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000145/ScoringFiles/PGS000145.txt.gz |
| 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 | http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000140/ScoringFiles/PGS000140.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 | http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000143/ScoringFiles/PGS000143.txt.gz |
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) |
Evaluated Score |
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 |
|---|---|---|---|---|---|---|---|---|---|
| PPM000430 | PGS000138 (LifetimeMDD) | PSS000250 | PGP000068 Cai N et al. (2020) |
Reported Trait: Major Depressive Disorder status | — | AUROC: 0.5611035 | R²: 0.018171054 | Cohort | — |
| PPM000431 | PGS000139 (MDDRecur) | PSS000250 | PGP000068 Cai N et al. (2020) |
Reported Trait: Major Depressive Disorder status | — | AUROC: 0.5487412 | R²: 0.01097163 | Cohort | — |
| PPM000433 | PGS000141 (Psypsy) | PSS000250 | PGP000068 Cai N et al. (2020) |
Reported Trait: Major Depressive Disorder status | — | AUROC: 0.5298792 | R²: 0.004380311 | Cohort | — |
| PPM000434 | PGS000142 (DepAll) | PSS000250 | PGP000068 Cai N et al. (2020) |
Reported Trait: Major Depressive Disorder status | — | AUROC: 0.5333024 | R²: 0.004918643 | Cohort | — |
| PPM000436 | PGS000144 (SelfRepDep) | PSS000250 | PGP000068 Cai N et al. (2020) |
Reported Trait: Major Depressive Disorder status | — | AUROC: 0.5164074 | R²: 0.001171257 | Cohort | — |
| PPM000437 | PGS000145 (ICD10Dep) | PSS000250 | PGP000068 Cai N et al. (2020) |
Reported Trait: Major Depressive Disorder status | — | AUROC: 0.5251015 | R²: 0.003198656 | Cohort | — |
| PPM000432 | PGS000140 (GPpsy) | PSS000250 | PGP000068 Cai N et al. (2020) |
Reported Trait: Major Depressive Disorder status | — | AUROC: 0.5319298 | R²: 0.004810792 | Cohort | — |
| PPM000435 | PGS000143 (GPNoDep) | PSS000250 | PGP000068 Cai N et al. (2020) |
Reported Trait: Major Depressive Disorder status | — | AUROC: 0.5344061 | R²: 0.004712141 | Cohort | — |
|
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 | — | — | [
|
— | European | — | 15 cohorts
|
Part of PGC29 (PMID: 29700475) |