PGS Publication: PGP000682

Publication Information (EuropePMC)
Title Genetic determinants of Vitamin D deficiency in the Middle Eastern Qatari population: a genome-wide association study.
PubMed ID 37841410(Europe PMC)
doi 10.3389/fnut.2023.1242257
Publication Date Sept. 29, 2023
Journal Front Nutr
Author(s) Hendi NN, Al-Sarraj Y, Ismail Umlai UK, Suhre K, Nemer G, Albagha O.
Released in PGS Catalog: Oct. 8, 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
List of ancestries includes:
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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)
PGS000702
(snpnet.Vitamin_D)
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Vitamin D [nmol/L] vitamin D measurement 8,012
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000702/ScoringFiles/PGS000702.txt.gz - Check Terms/Licenses

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
PPM022175 PGS000702
(snpnet.Vitamin_D)
 PSS011828|
Greater Middle Eastern Ancestry|
5,885 individuals
 PGP000682 |
Hendi NN et al. Front Nutr (2023)
|Ext.		 Reported Trait: Vitamin D deficiency OR: 0.0935 [0.042, 0.2071] AUROC: 0.68 — — —
PPM022176 PGS000702
(snpnet.Vitamin_D)
 PSS011828|
Greater Middle Eastern Ancestry|
5,885 individuals
 PGP000682 |
Hendi NN et al. Front Nutr (2023)
|Ext.		 Reported Trait: Vitamin D insufficiency and deficiency OR: 0.0832 [0.0259, 0.2646] AUROC: 0.6385 — — —

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
PSS011828 — — 5,885 individuals,
43.6 % Male samples
 Mean = 40.0 years Greater Middle Eastern (Middle Eastern, North African or Persian)
(Qatari)		 — QBB —