PGS Publication: PGP000475

Publication Information (EuropePMC)
Title Higher Genetic Risk Loads Confer More Diverse Manifestations and Higher Risk of Lupus Nephritis in Systemic Lupus Erythematosus.
PubMed ID 37011055(Europe PMC)
doi 10.1002/art.42516
Publication Date April 3, 2023
Journal Arthritis Rheumatol
Author(s) Kwon YC, Ha E, Kwon HH, Park DJ, Shin JM, Joo YB, Chung WT, Yoo DH, Lee HS, Kim K, Bae SC, Bang SY.
Released in PGS Catalog: June 22, 2023

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)
PGS003756
(wGRS_SLE_non-HLA)
 PGP000475 |
Kwon YC et al. Arthritis Rheumatol (2023)
 Systemic lupus erythematosus systemic lupus erythematosus 112
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003756/ScoringFiles/PGS003756.txt.gz
PGS003757
(wGRS_SLE_HLA)
 PGP000475 |
Kwon YC et al. Arthritis Rheumatol (2023)
 Systemic lupus erythematosus systemic lupus erythematosus 10
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003757/ScoringFiles/PGS003757.txt.gz
PGS003755
(wGRS_SLE)
 PGP000475 |
Kwon YC et al. Arthritis Rheumatol (2023)
 Systemic lupus erythematosus systemic lupus erythematosus 122
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS003755/ScoringFiles/PGS003755.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
PPM018525 PGS003755
(wGRS_SLE)
 PSS011006|
East Asian Ancestry|
1,655 individuals
 PGP000475 |
Kwon YC et al. Arthritis Rheumatol (2023)
 Reported Trait: Class III/IV lupus nephritis in anti-sm positive systemic lupus erythematosus — AUROC: 0.582 [0.496, 0.668] — — —
PPM018519 PGS003755
(wGRS_SLE)
 PSS011006|
East Asian Ancestry|
1,655 individuals
 PGP000475 |
Kwon YC et al. Arthritis Rheumatol (2023)
 Reported Trait: Childhood-onset systemic lupus erythematosus (onset at age <16 years) — — p: 6.80e-08 — —
PPM018520 PGS003755
(wGRS_SLE)
 PSS011006|
East Asian Ancestry|
1,655 individuals
 PGP000475 |
Kwon YC et al. Arthritis Rheumatol (2023)
 Reported Trait: Number of American College of Rheumatology (ACR) criteria for systemic lupus erythematosus β: 0.143 [0.078, 0.208] — — Onset age, sex, disease duration, and top 4 principal components —
PPM018521 PGS003756
(wGRS_SLE_non-HLA)
 PSS011006|
East Asian Ancestry|
1,655 individuals
 PGP000475 |
Kwon YC et al. Arthritis Rheumatol (2023)
 Reported Trait: Number of American College of Rheumatology (ACR) criteria for systemic lupus erythematosus β: 0.133 [0.071, 0.194] — — Onset age, sex, disease duration, and top 4 principal components —
PPM018522 PGS003757
(wGRS_SLE_HLA)
 PSS011006|
East Asian Ancestry|
1,655 individuals
 PGP000475 |
Kwon YC et al. Arthritis Rheumatol (2023)
 Reported Trait: Number of American College of Rheumatology (ACR) criteria for systemic lupus erythematosus β: 0.213 [0.079, 0.347] — — Onset age, sex, disease duration, and top 4 principal components —
PPM018523 PGS003755
(wGRS_SLE)
 PSS011006|
East Asian Ancestry|
1,655 individuals
 PGP000475 |
Kwon YC et al. Arthritis Rheumatol (2023)
 Reported Trait: Renal disorder β: 1.22 [1.12, 1.33] — — Onset age, sex, disease duration, and top 4 principal components —
PPM018524 PGS003755
(wGRS_SLE)
 PSS011006|
East Asian Ancestry|
1,655 individuals
 PGP000475 |
Kwon YC et al. Arthritis Rheumatol (2023)
 Reported Trait: Production of anti-Sm antibody β: 1.23 [1.11, 1.36] — — Onset age, sex, disease duration, and top 4 principal components —
PPM018526 PGS003755
(wGRS_SLE)
 PSS011006|
East Asian Ancestry|
1,655 individuals
 PGP000475 |
Kwon YC et al. Arthritis Rheumatol (2023)
 Reported Trait: Class V lupus nephritis in anti-sm positive systemic lupus erythematosus — AUROC: 0.681 [0.602, 0.76] — — —

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
PSS011006 — — 1,655 individuals,
8.4 % Male samples
 Mean = 38.1 years
Sd = 12.5 years		 East Asian
(Korean)		 — NR —