Polygenic Score (PGS) ID: PGS019303

Predicted Trait
Reported Trait Gingival and periodontal diseases
Mapped Trait(s) tooth disorder (MONDO_0006999)
Released in PGS Catalog: July 29, 2026
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Score Details

Score Construction
PGS Name TPMI_523_PRS-CS
Development Method
Name PRS-CS
Parameters phi1e+00
Variants
Original Genome Build GRCh38
Number of Variants 983,820
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000835
Citation (link to publication) Chen HH et al. Nature (2025)
Ancestry Distribution
Source of Variant
Associations (GWAS)
East Asian: 100%
297,665 individuals (100%)
Score Development/Training
East Asian: 100%
68,209 individuals (100%)
PGS Evaluation
East Asian: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
—
[
  • 7,192 cases
  • , 290,473 controls
]
,
44.55 % Male samples
 East Asian
(Han Chinese)		 TPMI
Score Development/Training
Study Identifiers Sample Numbers Sample Ancestry Cohort(s) Phenotype Definitions & Methods Age of Study Participants Participant Follow-up Time Additional Ancestry Description Additional Sample/Cohort Information
—
[
  • 1,683 cases
  • , 66,526 controls
]
,
45.83 % Male samples
 East Asian
(Han Chinese)		 TPMI 523.0, 523.1, 523.2,K05.0, K05.1, K06.0 — — — —

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) 		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
PPM037485 PSS013215|
East Asian Ancestry|
18,461 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Gingival and periodontal diseases — AUROC: 0.65669 R²: 0.08483 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
PSS013215 522.4, 522.6, 523,K03.6, K04.4, K04.5, K05.0, K05.1, K05.2, K05.3, K05.4, K05.5, K05.6, K06.0, K06.1, K06.2, K06.8, K06.9 —
[
  • 1,839 cases
  • , 16,622 controls
]
,
46.14 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —