PGS Publication: PGP000048

Publication Information (EuropePMC)
Title Evaluation of polygenic risk scores for ovarian cancer risk prediction in a prospective cohort study.
PubMed ID 29730597(Europe PMC)
doi 10.1136/jmedgenet-2018-105313
Publication Date May 5, 2018
Journal J Med Genet
Author(s) Yang X, Leslie G, Gentry-Maharaj A, Ryan A, Intermaggio M, Lee A, Kalsi JK, Tyrer J, Gaba F, Manchanda R, Pharoah PDP, Gayther SA, Ramus SJ, Jacobs I, Menon U, Antoniou AC.
Released in PGS Catalog: Feb. 12, 2020

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:
Display options:
Ancestry legend
Multi-ancestry (including European)
Multi-ancestry (excluding European)
African
East Asian
South Asian
Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported

PGS Developed By This Publication

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
PGS000068
(PRS_EOC)
 PGP000048 |
Yang X et al. J Med Genet (2018)
 Epithelial ovarian cancer ovarian carcinoma 15
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000068/ScoringFiles/PGS000068.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
PPM000188 PGS000068
(PRS_EOC)
 PSS000108|
European Ancestry|
4,095 individuals
 PGP000048 |
Yang X et al. J Med Genet (2018)
 Reported Trait: all invasive epithelial ovarian cancer OR: 1.32 [1.21, 1.45] C-index: 0.58 [0.55, 0.6] — — —
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] — — —

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 —