Trait: rheumatoid factor measurement

Experimental Factor Ontology (EFO) Information
Identifier EFO_0005767
Description quantification of rheumatoid factors, antibodies in the serum of individuals with rheumatoid arthritis that react with antigenic determinants or immunoglobulins that enhance agglutination of suspended particles coated with pooled human gamma -globulin. Rheumatoid factors also occur in other autoimmune and certain infectious diseases.
Trait category
Other measurement
Mapped terms 2 mapped terms
  • NCIt:C74717
  • SNOMEDCT:54921001

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
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)
PGS001138
(GBE_BIN10030820)
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Rheumatoid factor [> 16 IU/mL] rheumatoid factor measurement 456
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001138/ScoringFiles/PGS001138.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
PPM008417 PGS001138
(GBE_BIN10030820)
 PSS003622|
African Ancestry|
6,090 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Rheumatoid factor > 16 IU/mL — AUROC: 0.59937 [0.56738, 0.63135] R²: 0.01517
Incremental AUROC (full-covars): -0.0001
PGS R2 (no covariates): 0.00074
PGS AUROC (no covariates): 0.52274 [0.48589, 0.55958]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008418 PGS001138
(GBE_BIN10030820)
 PSS003623|
East Asian Ancestry|
1,618 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Rheumatoid factor > 16 IU/mL — AUROC: 0.62134 [0.5547, 0.68798] R²: 0.0451
Incremental AUROC (full-covars): 0.02013
PGS R2 (no covariates): 0.00611
PGS AUROC (no covariates): 0.561 [0.49101, 0.631]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008419 PGS001138
(GBE_BIN10030820)
 PSS003624|
European Ancestry|
23,747 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Rheumatoid factor > 16 IU/mL — AUROC: 0.61687 [0.6002, 0.63355] R²: 0.02493
Incremental AUROC (full-covars): 0.04213
PGS R2 (no covariates): 0.01627
PGS AUROC (no covariates): 0.59686 [0.57968, 0.61405]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008420 PGS001138
(GBE_BIN10030820)
 PSS003625|
South Asian Ancestry|
7,429 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Rheumatoid factor > 16 IU/mL — AUROC: 0.59949 [0.57257, 0.62641] R²: 0.01901
Incremental AUROC (full-covars): 0.00874
PGS R2 (no covariates): 0.00434
PGS AUROC (no covariates): 0.54845 [0.52086, 0.57604]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008421 PGS001138
(GBE_BIN10030820)
 PSS003626|
European Ancestry|
64,281 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Rheumatoid factor > 16 IU/mL — AUROC: 0.60052 [0.59084, 0.6102] R²: 0.0181
Incremental AUROC (full-covars): 0.04923
PGS R2 (no covariates): 0.01405
PGS AUROC (no covariates): 0.58407 [0.57416, 0.59397]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method

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
PSS003622 — —
[
  • 282 cases
  • , 5,808 controls
]
 — African unspecified — UKB —
PSS003623 — —
[
  • 79 cases
  • , 1,539 controls
]
 — East Asian — UKB —
PSS003624 — —
[
  • 1,087 cases
  • , 22,660 controls
]
 — European non-white British ancestry UKB —
PSS003625 — —
[
  • 395 cases
  • , 7,034 controls
]
 — South Asian — UKB —
PSS003626 — —
[
  • 3,345 cases
  • , 60,936 controls
]
 — European white British ancestry UKB Testing cohort (heldout set)