Trait: Herpes Zoster

Experimental Factor Ontology (EFO) Information
Identifier EFO_0006510
Description A common dermal and neurologic disorder caused by reactivation of the varicella-zoster virus that has remained dormant within dorsal root ganglia, often for decades, after the patient's initial exposure to the virus in the form of varicella (chickenpox). It is characterized by severe neuralgic pain along the distribution of the affected nerve and crops of clustered vesicles over the area. [NCIT: C71079]
Trait category
Other disease
Synonyms 7 synonyms
  • HZ
  • Zoster
  • herpes Zoster
  • herpes zona
  • herpes zoster
  • shingles
  • zoster
Mapped terms 13 mapped terms
  • DOID:8536
  • ICD10:B02
  • ICD10:B02.9
  • ICD9:053
  • MESH:D006562
  • MONDO:0005609
  • MeSH:D006562
  • MedDRA:10019974
  • NCIT:C71079
  • NCIt:C71079
  • SCTID:4740000
  • SNOMEDCT:4740000
  • UMLS:C0019360

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)
PGS001131
(GBE_HC530)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Zoster [herpes zoster] (time-to-event) Herpes Zoster 82
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001131/ScoringFiles/PGS001131.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
PPM008383 PGS001131
(GBE_HC530)
PSS004516|
African Ancestry|
6,497 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: TTE zoster [herpes zoster] AUROC: 0.66564 [0.59848, 0.7328] : 0.02855
Incremental AUROC (full-covars): 0.00653
PGS R2 (no covariates): 0.00463
PGS AUROC (no covariates): 0.5717 [0.50786, 0.63553]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008384 PGS001131
(GBE_HC530)
PSS004517|
East Asian Ancestry|
1,704 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: TTE zoster [herpes zoster] AUROC: 0.6496 [0.5711, 0.7281] : 0.02884
Incremental AUROC (full-covars): 0.00319
PGS R2 (no covariates): 1e-05
PGS AUROC (no covariates): 0.49296 [0.39896, 0.58695]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008385 PGS001131
(GBE_HC530)
PSS004518|
European Ancestry|
24,905 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: TTE zoster [herpes zoster] AUROC: 0.61339 [0.59385, 0.63293] : 0.01934
Incremental AUROC (full-covars): 0.00397
PGS R2 (no covariates): 0.00108
PGS AUROC (no covariates): 0.52734 [0.50543, 0.54926]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008386 PGS001131
(GBE_HC530)
PSS004519|
South Asian Ancestry|
7,831 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: TTE zoster [herpes zoster] AUROC: 0.64482 [0.60407, 0.68558] : 0.02792
Incremental AUROC (full-covars): -0.00388
PGS R2 (no covariates): 0.00012
PGS AUROC (no covariates): 0.49268 [0.44738, 0.53799]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008387 PGS001131
(GBE_HC530)
PSS004520|
European Ancestry|
67,425 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: TTE zoster [herpes zoster] AUROC: 0.60947 [0.59775, 0.62119] : 0.0198
Incremental AUROC (full-covars): 0.00787
PGS R2 (no covariates): 0.00329
PGS AUROC (no covariates): 0.54558 [0.53361, 0.55755]
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
PSS004516
[
  • 63 cases
  • , 6,434 controls
]
African unspecified UKB
PSS004517
[
  • 38 cases
  • , 1,666 controls
]
East Asian UKB
PSS004518
[
  • 690 cases
  • , 24,215 controls
]
European non-white British ancestry UKB
PSS004519
[
  • 148 cases
  • , 7,683 controls
]
South Asian UKB
PSS004520
[
  • 2,222 cases
  • , 65,203 controls
]
European white British ancestry UKB Testing cohort (heldout set)