Trait: dentures

Experimental Factor Ontology (EFO) Information
Identifier EFO_0010078
Description Dentures (also known as false teeth) are prosthetic devices constructed to replace missing teeth, and are supported by the surrounding soft and hard tissues of the oral cavity. Conventional dentures are removable (removable partial denture or complete denture). However, there are many denture designs, some which rely on bonding or clasping onto teeth or dental implants (fixed prosthodontics).
Trait category
Other trait
Synonym false teeth
Mapped term https://en.wikipedia.org/wiki/Dentures

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)
PGS000995
(GBE_BIN_FC6006149)
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Dentures dentures 6,042
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000995/ScoringFiles/PGS000995.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
PPM007738 PGS000995
(GBE_BIN_FC6006149)
 PSS003989|
African Ancestry|
6,343 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Dentures — AUROC: 0.73289 [0.71604, 0.74974] R²: 0.16329
Incremental AUROC (full-covars): -0.00229
PGS R2 (no covariates): 0.00043
PGS AUROC (no covariates): 0.51216 [0.49281, 0.53151]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007739 PGS000995
(GBE_BIN_FC6006149)
 PSS003990|
East Asian Ancestry|
1,639 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Dentures — AUROC: 0.72417 [0.69434, 0.75399] R²: 0.15399
Incremental AUROC (full-covars): 0.00318
PGS R2 (no covariates): 0.01291
PGS AUROC (no covariates): 0.56189 [0.52824, 0.59554]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007740 PGS000995
(GBE_BIN_FC6006149)
 PSS003991|
European Ancestry|
24,793 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Dentures — AUROC: 0.75891 [0.7509, 0.76692] R²: 0.19117
Incremental AUROC (full-covars): 0.00459
PGS R2 (no covariates): 0.01565
PGS AUROC (no covariates): 0.57525 [0.56558, 0.58491]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007741 PGS000995
(GBE_BIN_FC6006149)
 PSS003992|
South Asian Ancestry|
7,528 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Dentures — AUROC: 0.72384 [0.70578, 0.74191] R²: 0.12209
Incremental AUROC (full-covars): -0.00241
PGS R2 (no covariates): 0.00154
PGS AUROC (no covariates): 0.52294 [0.50172, 0.54417]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM007742 PGS000995
(GBE_BIN_FC6006149)
 PSS003993|
European Ancestry|
67,277 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Dentures — AUROC: 0.72652 [0.72179, 0.73124] R²: 0.15104
Incremental AUROC (full-covars): 0.00704
PGS R2 (no covariates): 0.01052
PGS AUROC (no covariates): 0.55906 [0.55338, 0.56474]		 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
PSS003989 — —
[
  • 1,042 cases
  • , 5,301 controls
]
 — African unspecified — UKB —
PSS003990 — —
[
  • 340 cases
  • , 1,299 controls
]
 — East Asian — UKB —
PSS003991 — —
[
  • 3,977 cases
  • , 20,816 controls
]
 — European non-white British ancestry UKB —
PSS003992 — —
[
  • 812 cases
  • , 6,716 controls
]
 — South Asian — UKB —
PSS003993 — —
[
  • 11,773 cases
  • , 55,504 controls
]
 — European white British ancestry UKB Testing cohort (heldout set)