PGS Publication: PGP000160

Publication Information (EuropePMC)
Title Identification of 38 novel loci for systemic lupus erythematosus and genetic heterogeneity between ancestral groups.
PubMed ID 33536424(Europe PMC)
doi 10.1038/s41467-021-21049-y
Publication Date Feb. 3, 2021
Journal Nat Commun
Author(s) Wang YF, Zhang Y, Lin Z, Zhang H, Wang TY, Cao Y, Morris DL, Sheng Y, Yin X, Zhong SL, Gu X, Lei Y, He J, Wu Q, Shen JJ, Yang J, Lam TH, Lin JH, Mai ZM, Guo M, Tang Y, Chen Y, Song Q, Ban B, Mok CC, Cui Y, Lu L, Shen N, Sham PC, Lau CS, Smith DK, Vyse TJ, Zhang X, Lau YL, Yang W.
Released in PGS Catalog: April 7, 2021

Associated Polygenic Score(s)

PGS Developed By This Publication

Polygenic Score (PGS) ID PGS Name PGS Publication (PGP) ID Reported Trait Mapped Trait(s) (Ontology) Number of Variants PGS Scoring File (FTP Link)
PGS000754 PRS_SLE PGP000160
Wang YF et al. Nat Commun (2021)
 Systemic lupus erythrmatosus systemic lupus erythematosus 293,684 http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000754/ScoringFiles/PGS000754.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 ID) 		Evaluated Score PGS Sample Set ID
(PSS ID) 		Performance Source Trait PGS Effect Sizes
(per SD change) 		PGS Classification Metrics Other Metrics Covariates Included in the Model PGS Performance: Other Relevant Information
PPM001919 PGS000754
(PRS_SLE)
 PSS000963 PGP000160
Wang YF et al. Nat Commun (2021)
 Reported Trait: Systemic lupus erythematosus — AUROC: 0.76 [0.74, 0.78] — — —
PPM001920 PGS000754
(PRS_SLE)
 PSS000960 PGP000160
Wang YF et al. Nat Commun (2021)
 Reported Trait: Systemic lupus erythematosus — AUROC: 0.65 — — —
PPM001921 PGS000754
(PRS_SLE)
 PSS000961 PGP000160
Wang YF et al. Nat Commun (2021)
 Reported Trait: Systemic lupus erythematosus — AUROC: 0.65 — — —
PPM001922 PGS000754
(PRS_SLE)
 PSS000962 PGP000160
Wang YF et al. Nat Commun (2021)
 Reported Trait: Systemic lupus erythematosus — AUROC: 0.62 — — —

Evaluated Samples

PGS Sample Set ID
(PSS ID) 		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
PSS000960 Cases were individuals with systemic lupus erythematosus. —
[
  • 910 cases
  • , 430 controls
]
 — European — —
PSS000961 Cases were individuals with systemic lupus erythematosus. —
[
  • 2,354 cases
  • , 5,379 controls
]
 — European — —
PSS000962 Cases were individuals with systemic lupus erythematosus. —
[
  • 406 cases
  • , 706 controls
]
 — European — —
PSS000963 Cases were individuals with systemic lupus erythematosus. —
[
  • 1,604 cases
  • , 985 controls
]
 — East Asian
(Han Chinese)		 — —