PGS Publication: PGP000600

Publication Information (EuropePMC)
Title The Genetic Architecture of Vitamin D Deficiency among an Elderly Lebanese Middle Eastern Population: An Exome-Wide Association Study.
PubMed ID 37513634(Europe PMC)
doi 10.3390/nu15143216
Publication Date July 20, 2023
Journal Nutrients
Author(s) Hendi NN, Chakhtoura M, Al-Sarraj Y, Basha DS, Albagha O, Fuleihan GE, Nemer G.
Released in PGS Catalog: March 18, 2024

Associated Polygenic Score(s)

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Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
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Greater Middle Eastern
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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)
PGS000882
(25OHD_SBayesR_PGS)
 PGP000228 |
Revez JA et al. Nat Commun (2020)
 25-hydroxyvitamin D vitamin D measurement 1,094,650
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000882/ScoringFiles/PGS000882.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
PPM020900 PGS000882
(25OHD_SBayesR_PGS)
 PSS011443|
Greater Middle Eastern Ancestry|
194 individuals
 PGP000600 |
Hendi NN et al. Nutrients (2023)
|Ext.		 Reported Trait: Vitamin D deficiency OR: 1.6 [1.3, 13.7] AUROC: 0.644 — Age, sex, 4 PCs Only 41,736 of 1,094,650 variants available in cohort

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
PSS011443 — — 194 individuals Mean = 71.13 years
Sd = 4.82 years		 Greater Middle Eastern (Middle Eastern, North African or Persian)
(Lebanese)		 — NR —