PGS Publication: PGP000352

Publication Information (EuropePMC)
Title Glaucoma genetic risk scores in the Million Veteran Program.
PubMed ID 35718050(Europe PMC)
doi 10.1016/j.ophtha.2022.06.012
Publication Date June 16, 2022
Journal Ophthalmology
Author(s) Waksmunski AR, Kinzy TG, Cruz LA, Nealon CL, Halladay CW, Simpson P, Canania RL, Anthony SA, Roncone DP, Rogers LS, Leber JN, Dougherty JM, Greenberg PB, Sullivan JM, Wu WC, Iyengar SK, Crawford DC, Peachey NS, Cooke Bailey JN, VA Million Veteran Program.
Released in PGS Catalog: Aug. 3, 2022

Associated Polygenic Score(s)

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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
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Multi-ancestry (excluding European)
African
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South Asian
Additional Asian Ancestries
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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)
PGS002741
(GRS127_POAG_META)
 PGP000352 |
Waksmunski AR et al. Ophthalmology (2022)
 Primary open-angle glaucoma open-angle glaucoma 127
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002741/ScoringFiles/PGS002741.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
PPM014899 PGS002741
(GRS127_POAG_META)
 PSS009920|
African Ancestry|
2,448 individuals
 PGP000352 |
Waksmunski AR et al. Ophthalmology (2022)
 Reported Trait: Primary open-angle glaucoma — AUROC: 0.69 [0.67, 0.7] — Age, sex, and 10 sample-specific PCs —
PPM014900 PGS002741
(GRS127_POAG_META)
 PSS009921|
European Ancestry|
3,382 individuals
 PGP000352 |
Waksmunski AR et al. Ophthalmology (2022)
 Reported Trait: Primary open-angle glaucoma — AUROC: 0.67 [0.66, 0.68] — Age, sex, and 10 sample-specific PCs —
PPM014901 PGS002741
(GRS127_POAG_META)
 PSS009921|
European Ancestry|
3,382 individuals
 PGP000352 |
Waksmunski AR et al. Ophthalmology (2022)
 Reported Trait: Invasive glaucoma surgery β: 0.265 (0.068) — — Age, sex, and 10 sample-specific PCs —
PPM014902 PGS002741
(GRS127_POAG_META)
 PSS009921|
European Ancestry|
3,382 individuals
 PGP000352 |
Waksmunski AR et al. Ophthalmology (2022)
 Reported Trait: Invasive glaucoma surgery (glaucoma drainage implants) β: 0.338 (0.079) — — Age, sex, and 10 sample-specific PCs —
PPM014903 PGS002741
(GRS127_POAG_META)
 PSS009921|
European Ancestry|
3,382 individuals
 PGP000352 |
Waksmunski AR et al. Ophthalmology (2022)
 Reported Trait: Invasive glaucoma surgery (trabeculectomy or glaucoma drainage implants) β: 0.274 (0.067) — — Age, sex, and 10 sample-specific PCs —

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
PSS009920 — — 2,448 individuals — African unspecified — MVP —
PSS009921 — — 3,382 individuals — European — MVP —