Experimental Factor Ontology (EFO) Information | |
Identifier | EFO_0003871 |
Description | A neoplasm (disease) that involves the tongue. [MONDO: patterns/location] | Trait category |
Cancer
Digestive system disorder
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Synonyms |
28 synonyms
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Mapped term(s) |
7 mapped terms
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Polygenic Score (PGS) ID | PGS Name | PGS Publication (PGP) ID | Reported Trait | Mapped Trait(s) (Ontology) | Number of Variants | PGS Scoring File (FTP Link) |
---|---|---|---|---|---|---|
PGS000359 | PRSWEB_PHECODE145.2_C3-TONGUENAS_PRS-CS_MGI_20200608 | PGP000118 Fritsche LG et al. Am J Hum Genet (2020) | Cancer of tongue | tongue neoplasm | 931,954 | http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000359/ScoringFiles/PGS000359.txt.gz |
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 |
---|---|---|---|---|---|---|---|---|---|
PPM001044 | PGS000359 (PRSWEB_PHECODE145.2_C3-TONGUENAS_PRS-CS_MGI_20200608) | PSS000534 | PGP000118 Fritsche LG et al. (2020) |
Reported Trait: Cancer of tongue | OR: 1.142 [1.006, 1.297] β: 0.133 (0.0647) |
AUROC: 0.538 [0.501, 0.575] | Nagelkerke's Pseudo-R²: 0.00325 Brier score: 0.0827 Odds Ratio (OR, top 1% vs. Rest): 1.69 [0.61, 4.71] |
age, sex, batch PCs 1-4 | Cancer PRSweb PheWAS Results: PRSWEB_PHECODE145.2_C3-TONGUENAS_PRS-CS_MGI_20200608 |
PGS Sample Set ID (PSS ID) |
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 |
---|---|---|---|---|---|---|---|---|
PSS000534 | PheCode:145.2; ICD9CM:141.0, 141.1, 141.2, 141.3, 141.4, 141.5, 141.6, 141.8, 141.9, V10.01; ICD10CM:C01, C02, C02.0, C02.1, C02.2, C02.3, C02.4, C02.8, C02.9 | — | [
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— | European | — | MGI | — |