Polygenic Score (PGS) ID: PGS002291

Predicted Trait
Reported Trait Nasopharyngeal carcinoma
Mapped Trait(s) nasopharyngeal neoplasm (EFO_0004252)
Released in PGS Catalog: May 18, 2022
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Score Details

Score Construction
PGS Name PRS12_NPC
Development Method
Name Genome-wide significant variants
Parameters previously reported variants <=0.0005, pjoint<5E-08, Pconditional<0.05, r2>0.9,
Variants
Original Genome Build hg19
Number of Variants 12
Effect Weight Type log(OR)
PGS Source
PGS Catalog Publication (PGP) ID PGP000320
Citation (link to publication) He YQ et al. Nat Commun (2022)
Ancestry Distribution
Source of Variant
Associations (GWAS)
Not Reported: 100%
PGS Evaluation
East Asian: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GCST90093313
 NR Not reported 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
PPM013010 PSS009646|
East Asian Ancestry|
2,893 individuals
 PGP000320 |
He YQ et al. Nat Commun (2022)
 Reported Trait: Nasopharyngeal carcinoma — AUROC: 0.64 — — —
PPM013011 PSS009646|
East Asian Ancestry|
2,893 individuals
 PGP000320 |
He YQ et al. Nat Commun (2022)
 Reported Trait: Nasopharyngeal carcinoma — AUROC: 0.69 — Family history of NPC —

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
PSS009646 — —
[
  • 1,304 cases
  • , 1,589 controls
]
 — East Asian — NR —