Polygenic Score (PGS) ID: PGS012588

Predicted Trait
Reported Trait Oropharynx cancer
Mapped Trait(s) oropharynx cancer (MONDO_0004608)
Released in PGS Catalog: June 17, 2026
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Score Details

Score Construction
PGS Name PRS_HNC_OPC
Development Method
Name PRS-CS
Parameters NR
Variants
Original Genome Build NR
Number of Variants 972,182
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000822
Citation (link to publication) Lee YC et al. BMC Med (2024)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
6,629 individuals (100%)
PGS Evaluation
European: 50%
Multi-ancestry (including European): 50%
  • European
  • African
2 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
Europe PMC: 27749845
[
  • 2,617 cases
  • , 4,012 controls
]
 European EPIC, HN5000, INHANCE

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
PPM030761 PSS012283|
Multi-ancestry (including European)|
37,901 individuals
 PGP000822 |
Lee YC et al. BMC Med (2024)
 Reported Trait: Oropharynx cancer OR: 1.24 [1.08, 1.42] — — age, sex, ethnicity, and PC 1 to 10 —
PPM030757 PSS012284|
European Ancestry|
307,295 individuals
 PGP000822 |
Lee YC et al. BMC Med (2024)
 Reported Trait: Oropharynx cancer OR: 1.09 [1.02, 1.17] — — age, sex, genotype array, and PC 1 to 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
PSS012283 — —
[
  • 231 cases
  • , 37,670 controls
]
 — European, African American or Afro-Caribbean — PMB —
PSS012284 — —
[
  • 556 cases
  • , 306,739 controls
]
 — European — UKB —