Polygenic Score (PGS) ID: PGS018596

Predicted Trait
Reported Trait Secondary malignant neoplasm
Mapped Trait(s) secondary malignant neoplasm (MONDO_0024881)
Released in PGS Catalog: July 29, 2026
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Score Details

Score Construction
PGS Name TPMI_198_LDpred2
Development Method
Name LDpred2
Parameters NR
Variants
Original Genome Build GRCh38
Number of Variants 939,881
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%
305,624 individuals (100%)
Score Development/Training
East Asian: 100%
68,159 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)
—
[
  • 1,720 cases
  • , 303,904 controls
]
,
44.79 % 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
—
[
  • 627 cases
  • , 67,532 controls
]
,
46.63 % Male samples
 East Asian
(Han Chinese)		 TPMI 198.5, 209.73,C79.5, C7B.03 — — — —

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
PPM036778 PSS012502|
East Asian Ancestry|
17,306 individuals
 PGP000835 |
Chen HH et al. Nature (2025)
 Reported Trait: Secondary malignant neoplasm — AUROC: 0.67812 R²: 0.03797 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
PSS012502 196, 197, 198, 209.7, 511.81, 789.51,C77, C78, C79.0, C79.1, C79.2, C79.3, C79.4, C79.5, C79.6, C79.7, C79.8, C79.9, C7B.01, C7B.02, C7B.03, C7B.04, C7B.09, C7B.8, J91.0, R18.0 —
[
  • 438 cases
  • , 16,868 controls
]
,
46.78 % Male samples
 — East Asian
(Han Chinese)		 — TPMI —