Trait: Follicular Cyst

Experimental Factor Ontology (EFO) Information
Identifier EFO_1001329
Description Cyst due to the occlusion of the duct of a follicle or small gland.
Trait category
Other disease
Mapped terms 3 mapped terms
  • ICD10:L72
  • MeSH:D005497
  • SNOMEDCT:103614000

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)
PGS000963
(GBE_HC1184)
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Follicular cysts of skin and subcutaneous tissue (time-to-event) Follicular Cyst 264
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000963/ScoringFiles/PGS000963.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
PPM007639 PGS000963
(GBE_HC1184)
 PSS004168|
African Ancestry|
6,497 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: TTE follicular cysts of skin and subcutaneous tissue — AUROC: 0.56399 [0.51489, 0.61308] R²: 0.01027
Incremental AUROC (full-covars): -0.00108
PGS R2 (no covariates): 0.00011
PGS AUROC (no covariates): 0.51899 [0.4747, 0.56328]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007640 PGS000963
(GBE_HC1184)
 PSS004169|
East Asian Ancestry|
1,704 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: TTE follicular cysts of skin and subcutaneous tissue — AUROC: 0.64299 [0.54406, 0.74191] R²: 0.02377
Incremental AUROC (full-covars): 0.01591
PGS R2 (no covariates): 0.00898
PGS AUROC (no covariates): 0.60189 [0.51478, 0.689]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007641 PGS000963
(GBE_HC1184)
 PSS004170|
European Ancestry|
24,905 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: TTE follicular cysts of skin and subcutaneous tissue — AUROC: 0.61353 [0.59056, 0.63651] R²: 0.02635
Incremental AUROC (full-covars): 0.0691
PGS R2 (no covariates): 0.02281
PGS AUROC (no covariates): 0.59346 [0.56998, 0.61695]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007642 PGS000963
(GBE_HC1184)
 PSS004171|
South Asian Ancestry|
7,831 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: TTE follicular cysts of skin and subcutaneous tissue — AUROC: 0.64204 [0.6008, 0.68328] R²: 0.03504
Incremental AUROC (full-covars): 0.04562
PGS R2 (no covariates): 0.02125
PGS AUROC (no covariates): 0.56287 [0.51348, 0.61226]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007643 PGS000963
(GBE_HC1184)
 PSS004172|
European Ancestry|
67,425 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: TTE follicular cysts of skin and subcutaneous tissue — AUROC: 0.6146 [0.60131, 0.6279] R²: 0.02902
Incremental AUROC (full-covars): 0.06632
PGS R2 (no covariates): 0.02439
PGS AUROC (no covariates): 0.58761 [0.57398, 0.60124]		 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
PSS004168 — —
[
  • 141 cases
  • , 6,356 controls
]
 — African unspecified — UKB —
PSS004169 — —
[
  • 29 cases
  • , 1,675 controls
]
 — East Asian — UKB —
PSS004170 — —
[
  • 668 cases
  • , 24,237 controls
]
 — European non-white British ancestry UKB —
PSS004171 — —
[
  • 180 cases
  • , 7,651 controls
]
 — South Asian — UKB —
PSS004172 — —
[
  • 1,995 cases
  • , 65,430 controls
]
 — European white British ancestry UKB Testing cohort (heldout set)