Trait: nasopharyngeal carcinoma

Trait Information
Identifier MONDO_0015459
Description A carcinoma arising from the nasopharyngeal epithelium. It includes the following types: keratinizing squamous cell carcinoma, nonkeratinizing carcinoma (differentiated and undifferentiated), basaloid squamous cell carcinoma, and papillary adenocarcinoma. [NCIT: C3871]
Trait categories
Cancer
Digestive system disorder
Other disease
Synonyms 28 synonyms
  • NPC
  • cancer of nasopharynx
  • cancer of the nasopharynx
  • carcinoma of nasopharynx
  • carcinoma of the nasopharynx
  • malignant nasopharyngeal tumor
  • malignant nasopharyngeal tumour
  • malignant neoplasm of anterior wall of nasopharynx
  • malignant neoplasm of lateral wall of nasopharynx
  • malignant neoplasm of nasopharyngeal wall
  • malignant neoplasm of nasopharynx
  • malignant neoplasm of nasopharynx (disorder) [ambiguous]
  • malignant neoplasm of other specified sites of nasopharynx
  • malignant neoplasm of posterior wall of nasopharynx
  • malignant neoplasm of roof of nasopharynx
  • malignant neoplasm of superior wall of nasopharynx
  • malignant tumor of anterior wall of nasopharynx
  • malignant tumor of lateral wall of nasopharynx
  • malignant tumor of posterior wall of nasopharynx
  • malignant tumour of anterior wall of nasopharynx
  • malignant tumour of lateral wall of nasopharynx
  • malignant tumour of posterior wall of nasopharynx
  • nasopharyngeal cancer
  • nasopharyngeal carcinoma
  • nasopharyngeal throat cancer
  • nasopharynx carcinoma
  • primary malignant neoplasm of anterior wall of nasopharynx
  • squamous cell carcinoma of the nasopharynx

Associated Polygenic Score(s)

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Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
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Multi-ancestry (excluding European)
African
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Additional Asian Ancestries
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Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported
Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution
GWAS
Dev
Eval
 Scoring File (FTP Link)
PGS019974
(Nasopharynx)
 PGP000850 |
Hu J et al. PLoS Genet (2026)
 Nasopharyngeal cancer nasopharyngeal carcinoma 1,083,569
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS019974/ScoringFiles/PGS019974.txt.gz

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) 		Evaluated Score 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
PPM038180 PGS019974
(Nasopharynx)
 PSS013870|
European Ancestry|
351,557 individuals
 PGP000850 |
Hu J et al. PLoS Genet (2026)
 Reported Trait: Nasopharyngeal cancer OR: 0.98 [0.8, 1.21] AUROC: 0.49 [0.43, 0.55] — — —

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
PSS013870 — —
[
  • 88 cases
  • , 351,469 controls
]
 — European
(EUR)		 — UKB —