Predicted Trait | |
Reported Trait | WA ICVF in tract forceps minor |
Mapped Trait(s) | |
Additional Trait Information | https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25661 |
Score Construction | |
PGS Name | GBE_INI25661 |
Development Method | |
Name | snpnet |
Parameters | NR |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 2,047 |
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% 21,080 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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— | 21,080 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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PPM006410 | PSS006246| African Ancestry| 182 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA ICVF in tract forceps minor | — | — | R²: 0.12307 [0.10812, 0.13802] Incremental R2 (full-covars): -0.00202 PGS R2 (no covariates): 0.0036 [0.00069, 0.00651] | age, sex, UKB array type, Genotype PCs | — |
PPM006411 | PSS006247| East Asian Ancestry| 106 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA ICVF in tract forceps minor | — | — | R²: 0.15895 [0.12717, 0.19072] Incremental R2 (full-covars): 0.02548 PGS R2 (no covariates): 0.02274 [0.00878, 0.03671] | age, sex, UKB array type, Genotype PCs | — |
PPM006412 | PSS006248| European Ancestry| 1,651 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA ICVF in tract forceps minor | — | — | R²: 0.18666 [0.17793, 0.19539] Incremental R2 (full-covars): 0.07244 PGS R2 (no covariates): 0.06896 [0.06289, 0.07503] | age, sex, UKB array type, Genotype PCs | — |
PPM006413 | PSS006249| South Asian Ancestry| 299 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA ICVF in tract forceps minor | — | — | R²: 0.11907 [0.10561, 0.13253] Incremental R2 (full-covars): 0.03725 PGS R2 (no covariates): 0.03241 [0.02469, 0.04012] | age, sex, UKB array type, Genotype PCs | — |
PPM006414 | PSS006250| European Ancestry| 5,120 individuals | PGP000244 | Tanigawa Y et al. PLoS Genet (2022) | Reported Trait: WA ICVF in tract forceps minor | — | — | R²: 0.1388 [0.13395, 0.14364] Incremental R2 (full-covars): 0.06198 PGS R2 (no covariates): 0.06148 [0.05797, 0.06499] | 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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PSS006246 | — | — | 182 individuals | — | African unspecified | — | UKB | — |
PSS006247 | — | — | 106 individuals | — | East Asian | — | UKB | — |
PSS006248 | — | — | 1,651 individuals | — | European | non-white British ancestry | UKB | — |
PSS006249 | — | — | 299 individuals | — | South Asian | — | UKB | — |
PSS006250 | — | — | 5,120 individuals | — | European | white British ancestry | UKB | Testing cohort (heldout set) |