PGS Publication: PGP000683

Publication Information (EuropePMC)
Title Single-Ancestry versus Multi-Ancestry Polygenic Risk Scores for CKD in Black American Populations.
PubMed ID 39073889(Europe PMC)
doi 10.1681/asn.0000000000000437
Publication Date July 29, 2024
Journal J Am Soc Nephrol
Author(s) Jones AC, Patki A, Srinivasasainagendra V, Tiwari HK, Armstrong ND, Chaudhary NS, Limdi NA, Hidalgo BA, Davis B, Cimino JJ, Khan A, Kiryluk K, Lange LA, Lange EM, Arnett DK, Young BA, Diamantidis CJ, Franceschini N, Wassertheil-Smoller S, Rich SS, Rotter JI, Mychaleckyj JC, Kramer HJ, Chen YI, Psaty BM, Brody JA, de Boer IH, Bansal N, Bis JC, Irvin MR.
Released in PGS Catalog: Oct. 29, 2024

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

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)
PGS005090
(CKD_PRS_AA)
 PGP000683 |
Jones AC et al. J Am Soc Nephrol (2024)
 Chronic kidney disease (stage 3 or higher) chronic kidney disease 1,142,436
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005090/ScoringFiles/PGS005090.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
PPM022177 PGS005090
(CKD_PRS_AA)
 PSS011829|
African Ancestry|
67,819 individuals
 PGP000683 |
Jones AC et al. J Am Soc Nephrol (2024)
 Reported Trait: Chronic kidney disease OR: 1.41 [1.14, 1.76] AUROC: 0.9 R²: 0.1 age, sex, diabetes, PC1-PC10 —

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
PSS011829 CKD (stage 3 or higher) per KDIGO staging —
[
  • 103 cases
  • , 1,759 controls
]
,
37.0 % Male samples
 Mean = [18.0, 99.0] years African American or Afro-Caribbean
(African American)		 — HYPERGEN —