Predicted Trait | |
Reported Trait | Brain cancer |
Mapped Trait(s) | brain cancer (MONDO_0001657) |
Additional Trait Information | PheCode 191.11 |
Score Construction | |
PGS Name | PRSWEB_PHECODE191.11_GWAS-Catalog-r2019-05-03-X191.11_PT_UKB_20200608 |
Development Method | |
Name | Pruning and Thresholding (P+T) |
Parameters | LD Clumping (MAF >= 1%, r^2 <= 0.1) & P<=5.01e-29 |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 5 |
Effect Weight Type | NR |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000118 |
Citation (link to publication) | Fritsche LG et al. Am J Hum Genet (2020) |
Study Identifiers
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Sample Numbers
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Sample Ancestry
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Cohort(s)
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GWAS Catalog: GCST001470 Europe PMC: 22472174 | 315 individuals | European | NR |
GWAS Catalog: GCST003220 Europe PMC: 26424050 | 9,218 individuals | European | NR |
GWAS Catalog: GCST004349 Europe PMC: 28346443 | 24,381 individuals | European | NR |
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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Europe PMC: 32991828 | [
| European | UKB | PheCode:191.11; ICD9:191, 191.0, 191.1, 191.2, 191.3, 191.4, 191.5, 191.6, 191.7, 191.8, 191.9; ICD1... 0:C71.0, C71.1, C71.2, C71.3, C71.4, C71.5, C71.6, C71.7, C71.8, C71.9Show more | — | — | — | — |
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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PPM001309 | PSS000577| European Ancestry| 3,020 individuals | PGP000118 | Fritsche LG et al. Am J Hum Genet (2020) | Reported Trait: Cancer of brain | OR: 1.515 [1.344, 1.708] β: 0.415 (0.0611) | AUROC: 0.606 [0.568, 0.642] | Nagelkerke's Pseudo-R²: 0.0326 Brier score: 0.0813 Odds Ratio (OR, top 1% vs. Rest): 4.15 [2.04, 8.41] | age, sex, batch PCs 1-4 | Cancer PRSweb PheWAS Results: PRSWEB_PHECODE191.11_GWAS-Catalog-r2019-05-03-X191.11_PT_UKB_20200608 |
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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PSS000577 | PheCode:191.11; ICD9:191, 191.0, 191.1, 191.2, 191.3, 191.4, 191.5, 191.6, 191.7, 191.8, 191.9; ICD1... 0:C71.0, C71.1, C71.2, C71.3, C71.4, C71.5, C71.6, C71.7, C71.8, C71.9Show more | — | [
| — | European | — | UKB | — |