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)

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)
PGS000754
(PRS_SLE)
 PGP000160 |
Wang YF et al. Nat Commun (2021)
 Systemic lupus erythematosus systemic lupus erythematosus 293,684
-
 https://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) 		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
PPM001919 PGS000754
(PRS_SLE)
 PSS000963|
East Asian Ancestry|
2,589 individuals
 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|
European Ancestry|
1,340 individuals
 PGP000160 |
Wang YF et al. Nat Commun (2021)
 Reported Trait: Systemic lupus erythematosus — AUROC: 0.65 — — —
PPM001921 PGS000754
(PRS_SLE)
 PSS000961|
European Ancestry|
7,733 individuals
 PGP000160 |
Wang YF et al. Nat Commun (2021)
 Reported Trait: Systemic lupus erythematosus — AUROC: 0.65 — — —
PPM001922 PGS000754
(PRS_SLE)
 PSS000962|
European Ancestry|
1,112 individuals
 PGP000160 |
Wang YF et al. Nat Commun (2021)
 Reported Trait: Systemic lupus erythematosus — AUROC: 0.62 — — —

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