Experimental Factor Ontology (EFO) Information | |
Identifier | EFO_0005543 |
Description | A benign or malignant brain and spinal cord tumor that arises from glial cells (astrocytes, oligodendrocytes, ependymal cells). Tumors that arise from astrocytes are called astrocytic tumors or astrocytomas. Tumors that arise from oligodendrocytes are called oligodendroglial tumors. Tumors that arise from ependymal cells are called ependymomas. [NCIT: C3059] | Trait category |
Cancer
Neurological disorder
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Synonyms |
16 synonyms
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Mapped term(s) |
9 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) |
---|---|---|---|---|---|---|
PGS000155 | cGRS_Glioma | PGP000075 Shi Z et al. Cancer Med (2019) |
Glioma | glioma | 19 | http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000155/ScoringFiles/PGS000155.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 |
---|---|---|---|---|---|---|---|---|---|
PPM000475 | PGS000155 (cGRS_Glioma) |
PSS000275 | PGP000075 Shi Z et al. Cancer Med (2019) |
Reported Trait: Glioma | — | — | Mean realative risk: 1.22 [1.18, 1.26] Wilcoxon test (case vs. control) p-value: 1.39e-37 |
— | — |
PPM000486 | PGS000155 (cGRS_Glioma) |
PSS000275 | PGP000075 Shi Z et al. Cancer Med (2019) |
Reported Trait: Glioma | — | — | Odds Ratio (OR; high vs. average risk groups): 1.8 [1.55, 2.1] | — | — |
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 |
---|---|---|---|---|---|---|---|---|
PSS000275 | Primary tumor samples from TCGA | — | [
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Mean = 52.0 years Sd = 16.0 years |
European | — | TCGA | — |
PSS000275 | — | — | [
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— | European | — | eMERGE | — |