Trait: nasopharyngeal neoplasm

Experimental Factor Ontology (EFO) Information
Identifier EFO_0004252
Description A benign or malignant neoplasm affecting the nasopharynx. Representative examples of benign neoplasms include angiofibroma and squamous papilloma. Representative examples of malignant neoplasms include keratinizing squamous cell carcinoma and nonkeratinizing carcinoma. [NCIT: C3257]
Trait category
Cancer
Synonyms 10 synonyms
  • nasopharyngeal neoplasm
  • nasopharyngeal neoplasms
  • nasopharyngeal tumor
  • nasopharynx neoplasm
  • nasopharynx neoplasm (disease)
  • nasopharynx tumor
  • neoplasm of nasopharynx
  • neoplasm of the nasopharynx
  • tumor of nasopharynx
  • tumor of the nasopharynx
Mapped terms 7 mapped terms
  • EFO:0004252
  • MESH:D009303
  • MONDO:0005375
  • NCIT:C3257
  • OMIM:617075
  • SCTID:126680004
  • UMLS:C0027439

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
Display options:
Ancestry legend
Multi-ancestry (including European)
Multi-ancestry (excluding European)
African
East Asian
South Asian
Additional Asian Ancestries
European
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 Scoring File (FTP Link)
PGS002291
(PRS12_NPC)
PGP000320 |
He YQ et al. Nat Commun (2022)
Nasopharyngeal carcinoma nasopharyngeal neoplasm 12
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002291/ScoringFiles/PGS002291.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
PPM013010 PGS002291
(PRS12_NPC)
PSS009646|
East Asian Ancestry|
2,893 individuals
PGP000320 |
He YQ et al. Nat Commun (2022)
Reported Trait: Nasopharyngeal carcinoma AUROC: 0.64
PPM013011 PGS002291
(PRS12_NPC)
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