Trait: prostate adenocarcinoma

Experimental Factor Ontology (EFO) Information
Identifier EFO_0000673
Description A carcinoma that arises from glandular epithelial cells of the prostate gland
Trait category
Cancer
Synonyms 5 synonyms
  • adenocarcinoma of prostate
  • adenocarcinoma of the prostate
  • prad
  • prostate adenocarcinoma
  • prostate gland adenocarcinoma
Mapped terms 9 mapped terms
  • DOID:2526
  • EFO:0000673
  • MEDGEN:764
  • MONDO:0005082
  • NCIT:C2919
  • OMIM:176807
  • ONCOTREE:PRAD
  • SCTID:399490008
  • UMLS:C0007112

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
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Ancestry legend
Multi-ancestry (including European)
Multi-ancestry (excluding European)
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Additional Asian Ancestries
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Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported
Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution
GWAS
Dev
Eval
 Scoring File (FTP Link)
PGS003383
(best_PRAD)
 PGP000413 |
Namba S et al. Cancer Res (2022)
 Prostate adenocarcinoma prostate adenocarcinoma 168,700
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003383/ScoringFiles/PGS003383.txt.gz

Performance Metrics

Disclaimer: The performance metrics are displayed as reported by the source studies. It is important to note that metrics are not necessarily comparable with each other. For example, metrics depend on the sample characteristics (described by the PGS Catalog Sample Set [PSS] ID), phenotyping, and statistical modelling. Please refer to the source publication for additional guidance on performance.

PGS Performance
Metric ID (PPM) 		Evaluated Score PGS Sample Set ID
(PSS) 		Performance Source Trait PGS Effect Sizes
(per SD change) 		Classification Metrics Other Metrics Covariates Included in the Model PGS Performance:
Other Relevant Information
PPM016258 PGS003383
(best_PRAD)
 PSS010084|
European Ancestry|
133,752 individuals
 PGP000413 |
Namba S et al. Cancer Res (2022)
 Reported Trait: prostate adenocarcinoma — AUROC: 0.813 R²: 0.0798 age, top 20 genetic principal components —

Evaluated Samples

PGS Sample Set ID
(PSS) 		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
PSS010084 C61 —
[
  • 7,100 cases
  • , 126,652 controls
]
 — European
(British)		 — UKB Controls were samples without any cancer diagnosis or self-reported cancer