Predicted Trait | |
Reported Trait | Volume of grey matter in Vermis VIIIb Cerebellum |
Mapped Trait(s) | |
Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25913 |
Score Construction | |
PGS Name | GBE_INI25913 |
Development Method | |
Name | snpnet |
Parameters | NR |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 1,916 |
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% 22,320 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
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Cohort(s)
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Phenotype Definitions & Methods
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Age of Study Participants
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Participant Follow-up Time
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Additional Ancestry Description
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Additional Sample/Cohort Information
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— | 22,320 individuals | European | UKB | — | — | — | white British ancestry | Training + validation cohort (train_val) |
PGS Performance Metric ID (PPM) |
PGS Sample Set ID (PSS) |
Performance Source
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Trait
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PGS Effect Sizes (per SD change) |
Classification Metrics
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Other Metrics
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Covariates Included in the Model
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PGS Performance: Other Relevant Information |
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PPM006990 | PSS006836| African Ancestry| 200 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Vol. of grey matter in Vermis VIIIb Cerebellum | — | — | R²: 0.02549 [0.01793, 0.03305] Incremental R2 (full-covars): -0.01502 PGS R2 (no covariates): 0.00026 [-0.00052, 0.00104] | age, sex, UKB array type, Genotype PCs | — |
PPM006991 | PSS006837| East Asian Ancestry| 113 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Vol. of grey matter in Vermis VIIIb Cerebellum | — | — | R²: 0.16952 [0.13711, 0.20192] Incremental R2 (full-covars): 0.02831 PGS R2 (no covariates): 0.03986 [0.02169, 0.05802] | age, sex, UKB array type, Genotype PCs | — |
PPM006992 | PSS006838| European Ancestry| 1,739 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Vol. of grey matter in Vermis VIIIb Cerebellum | — | — | R²: 0.10702 [0.09977, 0.11428] Incremental R2 (full-covars): 0.02623 PGS R2 (no covariates): 0.0274 [0.0234, 0.03139] | age, sex, UKB array type, Genotype PCs | — |
PPM006993 | PSS006839| South Asian Ancestry| 329 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Vol. of grey matter in Vermis VIIIb Cerebellum | — | — | R²: 0.10293 [0.09019, 0.11567] Incremental R2 (full-covars): 0.00146 PGS R2 (no covariates): 0.00347 [0.00087, 0.00606] | age, sex, UKB array type, Genotype PCs | — |
PPM006994 | PSS006840| European Ancestry| 5,443 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: Vol. of grey matter in Vermis VIIIb Cerebellum | — | — | R²: 0.10046 [0.09615, 0.10476] Incremental R2 (full-covars): 0.0372 PGS R2 (no covariates): 0.03883 [0.03597, 0.04169] | age, sex, UKB array type, Genotype PCs | — |
PGS Sample Set ID (PSS) |
Phenotype Definitions and Methods
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Participant Follow-up Time
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Sample Numbers
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Age of Study Participants
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Sample Ancestry
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Additional Ancestry Description
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Cohort(s)
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Additional Sample/Cohort Information
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PSS006836 | — | — | 200 individuals | — | African unspecified | — | UKB | — |
PSS006837 | — | — | 113 individuals | — | East Asian | — | UKB | — |
PSS006838 | — | — | 1,739 individuals | — | European | non-white British ancestry | UKB | — |
PSS006839 | — | — | 329 individuals | — | South Asian | — | UKB | — |
PSS006840 | — | — | 5,443 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |