PGS Publication: PGP000842

Publication Information (EuropePMC)
Title Generalizability of PGS<sub>313</sub> for breast cancer risk in a Los Angeles biobank.
PubMed ID 38704641(Europe PMC)
doi 10.1016/j.xhgg.2024.100302
Publication Date May 3, 2024
Journal HGG Adv
Author(s) Shang H, Ding Y, Venkateswaran V, Boulier K, Kathuria-Prakash N, Malidarreh PB, Luber JM, Pasaniuc B.
Released in PGS Catalog: Aug. 26, 2026

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

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
PPM038140 PGS000004
(PRS313_BC)
 PSS013834|
African Ancestry|
1,156 individuals
 PGP000842 |
Shang H et al. HGG Adv (2024)
|Ext.		 Reported Trait: Breast cancer OR: 1.31 [1.05, 1.64] AUROC: 0.61 [0.56, 0.65] — age, PC 1-9 —
PPM038141 PGS000004
(PRS313_BC)
 PSS013835|
European Ancestry|
11,873 individuals
 PGP000842 |
Shang H et al. HGG Adv (2024)
|Ext.		 Reported Trait: Breast cancer OR: 1.52 [1.23, 1.72] AUROC: 0.7 [0.69, 0.71] — age, PC 1-9 —
PPM038142 PGS000004
(PRS313_BC)
 PSS013836|
East Asian Ancestry|
2,010 individuals
 PGP000842 |
Shang H et al. HGG Adv (2024)
|Ext.		 Reported Trait: Breast cancer OR: 1.46 [1.23, 1.61] AUROC: 0.64 [0.6, 0.68] — age, PC 1-9 —
PPM038143 PGS000004
(PRS313_BC)
 PSS013837|
Hispanic or Latin American Ancestry|
3,303 individuals
 PGP000842 |
Shang H et al. HGG Adv (2024)
|Ext.		 Reported Trait: Breast cancer OR: 1.5 [1.31, 1.75] AUROC: 0.68 [0.65, 0.71] — age, PC 1-9 —

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
PSS013834 — —
[
  • 124 cases
  • , 1,032 controls
]
,
0.0 % Male samples
 Mean = 55.0 years
Sd = 17.0 years		 African American or Afro-Caribbean — UCLA —
PSS013835 — —
[
  • 1,466 cases
  • , 10,407 controls
]
,
0.0 % Male samples
 Mean = 55.0 years
Sd = 17.0 years		 European — UCLA —
PSS013836 — —
[
  • 207 cases
  • , 1,803 controls
]
,
0.0 % Male samples
 Mean = 52.0 years
Sd = 17.0 years		 East Asian — UCLA —
PSS013837 — —
[
  • 220 cases
  • , 3,083 controls
]
,
0.0 % Male samples
 Mean = 48.0 years
Sd = 17.0 years		 Hispanic or Latin American — UCLA —