Polygenic Score (PGS) ID: PGS005161

Predicted Trait
Reported Trait Stomach cancer
Mapped Trait(s) gastric cancer (MONDO_0001056)
Released in PGS Catalog: March 17, 2025
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Score Details

Score Construction
PGS Name PRS-GC
Development Method
Name Known susceptibility loci (genome-wide significant SNPs)
Parameters LD r2 ＞ 0.2 ; SNP threshold ＜ 5×10^-8
Variants
Original Genome Build GRCh37
Number of Variants 12
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000711
Citation (link to publication) Zhu M et al. PLoS Med (2025)
Ancestry Distribution
Source of Variant
Associations (GWAS)
East Asian: 100%
21,168 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)
GWAS Catalog: GCST012016
Europe PMC: 33002439
 21,168 individuals East Asian NR

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
PPM022398 PSS011938|
East Asian Ancestry|
100,219 individuals
 PGP000711 |
Zhu M et al. PLoS Med (2025)
 Reported Trait: Stomach Cancer HR: 1.27 [1.18, 1.38]
β: 0.239		 C-index: 0.572 — Age,Sex (if applicable),Region,Top 10 genetic ancestry principal components The HR and C-index values were derived from Cox proportional hazards regression models.

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
PSS011938 ICD-10: C16 Median = 11.33 years
Range = [10.18, 12.26] years
[
  • 745 cases
  • , 99,474 controls
]
,
42.8 % Male samples
 Mean = 53.69 years
Sd = 11.01 years		 East Asian
(Chinese)		 — CKB —