Trait: periodontal disorder

Trait Information
Identifier MONDO_0002635
Description An inflammatory process of the gingival tissues and/or periodontal membrane of the teeth, resulting in an abnormally deep gingival sulcus, possibly producing periodontal pockets and loss of alveolar bone support. [NCIT: P378]
Trait category
Other trait
Synonyms 7 synonyms
  • disease of periodontium
  • disease or disorder of periodontium
  • disorder of periodontium
  • periodontal disease
  • periodontal disorder
  • periodontium disease
  • periodontium disease or disorder
Child trait(s) 2 child traits

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
Note: This table shows PGS for child terms of "periodontal disorder" in the EFO hierarchy.
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)
PGS019305
(TPMI_523.1_Lassosum2)
 PGP000835 |
Chen HH et al. Nature (2025)
 Gingivitis gingivitis 38,420
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019305/ScoringFiles/PGS019305.txt.gz
PGS019306
(TPMI_523.1_LDpred2)
 PGP000835 |
Chen HH et al. Nature (2025)
 Gingivitis gingivitis 939,855
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019306/ScoringFiles/PGS019306.txt.gz
PGS019307
(TPMI_523.1_MegaPRS)
 PGP000835 |
Chen HH et al. Nature (2025)
 Gingivitis gingivitis 28,584
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019307/ScoringFiles/PGS019307.txt.gz
PGS019308
(TPMI_523.1_PRS-CS)
 PGP000835 |
Chen HH et al. Nature (2025)
 Gingivitis gingivitis 983,793
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019308/ScoringFiles/PGS019308.txt.gz
PGS019309
(TPMI_523.1_SBayesR)
 PGP000835 |
Chen HH et al. Nature (2025)
 Gingivitis gingivitis 989,009
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019309/ScoringFiles/PGS019309.txt.gz
PGS019310
(TPMI_523.3_Lassosum2)
 PGP000835 |
Chen HH et al. Nature (2025)
 Periodontitis acute or chronic acute pericementitis 800,498
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019310/ScoringFiles/PGS019310.txt.gz
PGS019311
(TPMI_523.3_LDpred2)
 PGP000835 |
Chen HH et al. Nature (2025)
 Periodontitis acute or chronic acute pericementitis 939,880
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019311/ScoringFiles/PGS019311.txt.gz
PGS019312
(TPMI_523.3_MegaPRS)
 PGP000835 |
Chen HH et al. Nature (2025)
 Periodontitis acute or chronic acute pericementitis 507,697
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019312/ScoringFiles/PGS019312.txt.gz
PGS019313
(TPMI_523.3_PRS-CS)
 PGP000835 |
Chen HH et al. Nature (2025)
 Periodontitis acute or chronic acute pericementitis 983,817
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019313/ScoringFiles/PGS019313.txt.gz
PGS019314
(TPMI_523.3_SBayesR)
 PGP000835 |
Chen HH et al. Nature (2025)
 Periodontitis acute or chronic acute pericementitis 934,116
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019314/ScoringFiles/PGS019314.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
PPM037487 PGS019305
(TPMI_523.1_Lassosum2)
 PSS013203|
East Asian Ancestry|
17,094 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Gingivitis — AUROC: 0.709 R²: 0.0658 sex, age, array, PCs 1-10 —
PPM037488 PGS019306
(TPMI_523.1_LDpred2)
 PSS013202|
East Asian Ancestry|
17,094 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Gingivitis — AUROC: 0.70895 R²: 0.06566 sex, age, array, PCs 1-10 —
PPM037489 PGS019307
(TPMI_523.1_MegaPRS)
 PSS013204|
East Asian Ancestry|
17,094 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Gingivitis — AUROC: 0.70904 R²: 0.06565 sex, age, array, PCs 1-10 —
PPM037490 PGS019308
(TPMI_523.1_PRS-CS)
 PSS013205|
East Asian Ancestry|
17,094 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Gingivitis — AUROC: 0.70898 R²: 0.06564 sex, age, array, PCs 1-10 —
PPM037491 PGS019309
(TPMI_523.1_SBayesR)
 PSS013206|
East Asian Ancestry|
17,094 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Gingivitis — AUROC: 0.7094 R²: 0.06585 sex, age, array, PCs 1-10 —
PPM037492 PGS019310
(TPMI_523.3_Lassosum2)
 PSS013208|
East Asian Ancestry|
18,181 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Periodontitis acute or chronic — AUROC: 0.656 R²: 0.0783 sex, age, array, PCs 1-10 —
PPM037493 PGS019311
(TPMI_523.3_LDpred2)
 PSS013207|
East Asian Ancestry|
18,181 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Periodontitis acute or chronic — AUROC: 0.65561 R²: 0.07813 sex, age, array, PCs 1-10 —
PPM037494 PGS019312
(TPMI_523.3_MegaPRS)
 PSS013209|
East Asian Ancestry|
18,181 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Periodontitis acute or chronic — AUROC: 0.65536 R²: 0.07776 sex, age, array, PCs 1-10 —
PPM037495 PGS019313
(TPMI_523.3_PRS-CS)
 PSS013210|
East Asian Ancestry|
18,181 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Periodontitis acute or chronic — AUROC: 0.65564 R²: 0.0781 sex, age, array, PCs 1-10 —
PPM037496 PGS019314
(TPMI_523.3_SBayesR)
 PSS013211|
East Asian Ancestry|
18,181 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Periodontitis acute or chronic — AUROC: 0.65585 R²: 0.07835 sex, age, array, PCs 1-10 —

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
PSS013202 523.0, 523.1, 523.2,K05.0, K05.1, K06.0 —
[
  • 472 cases
  • , 16,622 controls
]
,
45.75 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —
PSS013203 523.0, 523.1, 523.2,K05.0, K05.1, K06.0 —
[
  • 472 cases
  • , 16,622 controls
]
,
45.75 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —
PSS013204 523.0, 523.1, 523.2,K05.0, K05.1, K06.0 —
[
  • 472 cases
  • , 16,622 controls
]
,
45.75 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —
PSS013205 523.0, 523.1, 523.2,K05.0, K05.1, K06.0 —
[
  • 472 cases
  • , 16,622 controls
]
,
45.75 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —
PSS013206 523.0, 523.1, 523.2,K05.0, K05.1, K06.0 —
[
  • 472 cases
  • , 16,622 controls
]
,
45.75 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —
PSS013207 522.4, 522.6, 523.3, 523.4, 523.5,K04.4, K04.5, K05.2, K05.3, K05.4 —
[
  • 1,559 cases
  • , 16,622 controls
]
,
46.09 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —
PSS013208 522.4, 522.6, 523.3, 523.4, 523.5,K04.4, K04.5, K05.2, K05.3, K05.4 —
[
  • 1,559 cases
  • , 16,622 controls
]
,
46.09 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —
PSS013209 522.4, 522.6, 523.3, 523.4, 523.5,K04.4, K04.5, K05.2, K05.3, K05.4 —
[
  • 1,559 cases
  • , 16,622 controls
]
,
46.09 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —
PSS013210 522.4, 522.6, 523.3, 523.4, 523.5,K04.4, K04.5, K05.2, K05.3, K05.4 —
[
  • 1,559 cases
  • , 16,622 controls
]
,
46.09 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —
PSS013211 522.4, 522.6, 523.3, 523.4, 523.5,K04.4, K04.5, K05.2, K05.3, K05.4 —
[
  • 1,559 cases
  • , 16,622 controls
]
,
46.09 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —