Polygenic Score (PGS) ID: PGS005089

Predicted Trait
Reported Trait Non-mucinous epithelial ovarian cancer
Mapped Trait(s) ovarian carcinoma (EFO_0001075)
Released in PGS Catalog: Oct. 29, 2024
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Score Details

Score Construction
PGS Name PGS400_OC
Development Method
Name Select and Shrink using Summary Statistics (S4)
Parameters P-value:LD-r2 ratio = 0.0005. Well genotyped (OncoArray) non-indel variants.
Variants
Original Genome Build hg38
Number of Variants 400
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000680
Citation (link to publication) Barnes DR et al. medRxiv (2024) Preprint
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 95.9%
East Asian: 3.3%
African: 0.8%
199,951 individuals (100%)
Score Development/Training
European: 100%
150,658 individuals (100%)
PGS Evaluation
East Asian: 50%
European: 50%
2 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
[
  • 29,381 cases
  • , 162,308 controls
]
 European CIMBA, OCAC
[
  • 556 cases
  • , 1,099 controls
]
,
0.0 % Male samples
 African unspecified OCAC
[
  • 2,736 cases
  • , 3,871 controls
]
,
0.0 % Male samples
 East Asian OCAC
Score Development/Training
Study Identifiers Sample Numbers Sample Ancestry Cohort(s) Phenotype Definitions & Methods Age of Study Participants Participant Follow-up Time Additional Ancestry Description Additional Sample/Cohort Information
—
[
  • 1,264 cases
  • , 149,394 controls
]
,
0.0 % Male samples
 European
(Finnish)		 FinnGen — — — — —

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) 		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
PPM022169 PSS011826|
European Ancestry|
245,377 individuals
 PGP000680 |
Barnes DR et al. medRxiv (2024)
|Pre		 Reported Trait: Epithelial ovarian cancer OR: 1.43 [1.35, 1.52] AUROC: 0.603 — — —
PPM022173 PSS011825|
East Asian Ancestry|
61,457 individuals
 PGP000680 |
Barnes DR et al. medRxiv (2024)
|Pre		 Reported Trait: Epithelial ovarian cancer OR: 1.13 — — — —

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
PSS011825 — —
[
  • 843 cases
  • , 60,614 controls
]
,
0.0 % Male samples
 — East Asian
(Japanese)		 — BBJ —
PSS011826 — —
[
  • 848 cases
  • , 244,529 controls
]
,
0.0 % Male samples
 — European
(British)		 — UKB —