| Predicted Trait | |
| Reported Trait | Volume of ventricular cerebrospinal fluid |
| Mapped Trait(s) | |
| Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25004 |
| Score Construction | |
| PGS Name | GBE_INI25004 |
| Development Method | |
| Name | snpnet |
| Parameters | NR |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 772 |
| Effect Weight Type | NR |
| PGS Source | |
| PGS Catalog Publication (PGP) ID | PGP000244 |
| Citation (link to publication) | Tanigawa Y et al. PLoS Genet (2022) |
| Ancestry Distribution | |
| Score Development/Training | European: 100% 22,323 individuals (100%) |
| PGS Evaluation | European: 40% African: 20% East Asian: 20% South Asian: 20% 5 Sample Sets |
Study Identifiers
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Sample Numbers
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Sample Ancestry
|
Cohort(s)
|
Phenotype Definitions & Methods
|
Age of Study Participants
|
Participant Follow-up Time
|
Additional Ancestry Description
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Additional Sample/Cohort Information
|
|---|---|---|---|---|---|---|---|---|
| — | 22,323 individuals | European | UKB | — | — | — | white British ancestry | Training + validation cohort (train_val) |
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 |
|---|---|---|---|---|---|---|---|---|
| PPM005365 | PSS005201| African Ancestry| 200 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Vol. of ventricular cerebrospinal fluid | — | — | R²: 0.32375 [0.30505, 0.34246] Incremental R2 (full-covars): 0.01105 PGS R2 (no covariates): 0.00559 [0.00198, 0.00921] | age, sex, UKB array type, Genotype PCs | — |
| PPM005366 | PSS005202| East Asian Ancestry| 113 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Vol. of ventricular cerebrospinal fluid | — | — | R²: 0.349 [0.31255, 0.38544] Incremental R2 (full-covars): 0.01036 PGS R2 (no covariates): 0.00796 [-0.00043, 0.01635] | age, sex, UKB array type, Genotype PCs | — |
| PPM005367 | PSS005203| European Ancestry| 1,739 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Vol. of ventricular cerebrospinal fluid | — | — | R²: 0.28228 [0.27281, 0.29175] Incremental R2 (full-covars): 0.01775 PGS R2 (no covariates): 0.01813 [0.01485, 0.02141] | age, sex, UKB array type, Genotype PCs | — |
| PPM005368 | PSS005204| South Asian Ancestry| 329 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Vol. of ventricular cerebrospinal fluid | — | — | R²: 0.36613 [0.34915, 0.38311] Incremental R2 (full-covars): 0.00516 PGS R2 (no covariates): 0.00707 [0.00337, 0.01077] | age, sex, UKB array type, Genotype PCs | — |
| PPM005369 | PSS005205| European Ancestry| 5,445 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Vol. of ventricular cerebrospinal fluid | — | — | R²: 0.28661 [0.28085, 0.29238] Incremental R2 (full-covars): 0.01665 PGS R2 (no covariates): 0.01482 [0.01301, 0.01663] | age, sex, UKB array type, Genotype PCs | — |
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
|
|---|---|---|---|---|---|---|---|---|
| PSS005201 | — | — | 200 individuals | — | African unspecified | — | UKB | — |
| PSS005202 | — | — | 113 individuals | — | East Asian | — | UKB | — |
| PSS005203 | — | — | 1,739 individuals | — | European | non-white British ancestry | UKB | — |
| PSS005204 | — | — | 329 individuals | — | South Asian | — | UKB | — |
| PSS005205 | — | — | 5,445 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |