PGS Publication: PGP000537

Publication Information (EuropePMC)
Title Predicting Breast Cancer Risk for Women Veterans of African Ancestry in the Million Veteran Program.
PubMed ID 37284538(Europe PMC)
doi 10.1089/heq.2023.0011
Publication Date May 26, 2023
Journal Health Equity
Author(s) Luoh SW, Minnier J, Zhao H, Gao L.
Released in PGS Catalog: Dec. 15, 2023

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)
African
East Asian
South Asian
Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported

External PGS Evaluated 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)
PGS000004
(PRS313_BC)
 PGP000002 |
Mavaddat N et al. Am J Hum Genet (2018)
 Breast cancer breast carcinoma 313
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000004/ScoringFiles/PGS000004.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
PPM020279 PGS000004
(PRS313_BC)
 PSS011321|
African Ancestry|
10,717 individuals
 PGP000537 |
Luoh SW et al. Health Equity (2023)
|Ext.		 Reported Trait: Incident breast cancer — AUROC: 0.579 [0.522, 0.636] — — —
PPM020280 PGS000004
(PRS313_BC)
 PSS011322|
European Ancestry|
19,939 individuals
 PGP000537 |
Luoh SW et al. Health Equity (2023)
|Ext.		 Reported Trait: Incident breast cancer — AUROC: 0.622 [0.58, 0.664] — — —

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
PSS011321 — — 10,717 individuals,
0.0 % Male samples
 — African American or Afro-Caribbean
(non-Hispanic African)		 — MVP Full combined ancestry cohort: median age = 49 years, median follow-up time = 3.9 years
PSS011322 — — 19,939 individuals,
0.0 % Male samples
 — European — MVP Full combined ancestry cohort: median age = 49 years, median follow-up time = 3.9 years