Trait: Phlebitis

Experimental Factor Ontology (EFO) Information
Identifier EFO_1001395
Description Inflammation of a vein. [NCIT: P378]
Trait category
Cardiovascular disease
Synonyms 3 synonyms
  • inflammation of vein
  • phlebitis
  • vein inflammation
Mapped terms 10 mapped terms
  • DOID:864
  • ICD10:I80
  • MESH:D010689
  • MONDO:0004625
  • MeSH:D010689
  • MedDRA:10034879
  • NCIT:C38003
  • NCIt:C38003
  • SCTID:61599003
  • SNOMEDCT:61599003

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 Scoring File (FTP Link)
PGS000961
(GBE_HC987)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Phlebitis and thrombophlebitis (time-to-event) Phlebitis,
Thrombophlebitis
1,143
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000961/ScoringFiles/PGS000961.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
PPM007629 PGS000961
(GBE_HC987)
PSS004756|
African Ancestry|
6,497 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: TTE phlebitis and thrombophlebitis AUROC: 0.63235 [0.59259, 0.67211] : 0.02507
Incremental AUROC (full-covars): 0.00771
PGS R2 (no covariates): 0.00171
PGS AUROC (no covariates): 0.53507 [0.4917, 0.57844]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007630 PGS000961
(GBE_HC987)
PSS004757|
East Asian Ancestry|
1,704 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: TTE phlebitis and thrombophlebitis AUROC: 0.66631 [0.52571, 0.80691] : 0.04004
Incremental AUROC (full-covars): -0.006
PGS R2 (no covariates): 4e-05
PGS AUROC (no covariates): 0.50807 [0.37643, 0.63972]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007631 PGS000961
(GBE_HC987)
PSS004758|
European Ancestry|
24,905 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: TTE phlebitis and thrombophlebitis AUROC: 0.66949 [0.64981, 0.68916] : 0.04365
Incremental AUROC (full-covars): 0.03126
PGS R2 (no covariates): 0.01428
PGS AUROC (no covariates): 0.59647 [0.57489, 0.61804]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007632 PGS000961
(GBE_HC987)
PSS004759|
South Asian Ancestry|
7,831 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: TTE phlebitis and thrombophlebitis AUROC: 0.63064 [0.58623, 0.67504] : 0.02362
Incremental AUROC (full-covars): 0.00728
PGS R2 (no covariates): 0.0042
PGS AUROC (no covariates): 0.55251 [0.5057, 0.59933]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007633 PGS000961
(GBE_HC987)
PSS004760|
European Ancestry|
67,425 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: TTE phlebitis and thrombophlebitis AUROC: 0.64191 [0.63056, 0.65326] : 0.03444
Incremental AUROC (full-covars): 0.03745
PGS R2 (no covariates): 0.01698
PGS AUROC (no covariates): 0.58931 [0.57719, 0.60143]
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
PSS004756
[
  • 173 cases
  • , 6,324 controls
]
African unspecified UKB
PSS004757
[
  • 15 cases
  • , 1,689 controls
]
East Asian UKB
PSS004758
[
  • 710 cases
  • , 24,195 controls
]
European non-white British ancestry UKB
PSS004759
[
  • 145 cases
  • , 7,686 controls
]
South Asian UKB
PSS004760
[
  • 2,312 cases
  • , 65,113 controls
]
European white British ancestry UKB Testing cohort (heldout set)