Trait: ovarian serous carcinoma

Experimental Factor Ontology (EFO) Information
Identifier EFO_1001516
Description serous carcinoma located in the ovary
Trait category
Cancer

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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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)
PGS000069
(PRS_sEOC)
 PGP000048 |
Yang X et al. J Med Genet (2018)
 Serous epithelial ovarian cancer ovarian serous carcinoma 15
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000069/ScoringFiles/PGS000069.txt.gz
PGS003385
(best_OV)
 PGP000413 |
Namba S et al. Cancer Res (2022)
 Ovarian serous carcinoma ovarian serous carcinoma 144,810
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003385/ScoringFiles/PGS003385.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
PPM000189 PGS000069
(PRS_sEOC)
 PSS000108|
European Ancestry|
4,095 individuals
 PGP000048 |
Yang X et al. J Med Genet (2018)
 Reported Trait: serous epithelial ovarian cancer OR: 1.43 [1.29, 1.58] C-index: 0.6 [0.57, 0.63] — — —
PPM016260 PGS003385
(best_OV)
 PSS010083|
European Ancestry|
143,259 individuals
 PGP000413 |
Namba S et al. Cancer Res (2022)
 Reported Trait: ovarian serous carcinoma — AUROC: 0.717 R²: 0.0142 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
PSS000108 Adjudicated endpoint determined from medical notes by an outcome review committee Mean = 11.1 years
IQR = [10.0, 12.0] years
[
  • 750 cases
  • , 1,428 controls
]
,
0.0 % Male samples
 Mean = 63.0 years
Range = [50.0, 74.0] years		 European — UKCTOCS —
PSS000108 Adjudicated endpoint determined from medical notes by an outcome review committee Mean = 11.1 years
IQR = [10.0, 12.0] years
[
  • 489 cases
  • , 1,428 controls
]
,
0.0 % Male samples
 Mean = 63.0 years
Range = [50.0, 74.0] years		 European — UKCTOCS —
PSS010083 C56, histology was one of the followings: Papillary serous cystadenocarcinoma; Serous cystadenocarcinoma; Serous cystadenoma, borderline malignancy; Serous papillary cystic tumor of borderline malignancy; Serous surface papillary carcinoma —
[
  • 367 cases
  • , 142,892 controls
]
 — European
(British)		 — UKB Controls were samples without any cancer diagnosis or self-reported cancer