Trait: non-Hodgkins lymphoma

Experimental Factor Ontology (EFO) Information
Identifier EFO_0005952
Description Distinct from Hodgkin lymphoma both morphologically and biologically, non-Hodgkin lymphoma (NHL) is characterized by the absence of Reed-Sternberg cells, can occur at any age, and usually presents as a localized or generalized lymphadenopathy associated with fever and weight loss. The clinical course varies according to the morphologic type. NHL is clinically classified as indolent, aggressive, or having a variable clinical course. NHL can be of B-or T-/NK-cell lineage. [NCIT: C3211]
Trait category
Cancer
Synonyms 12 synonyms
  • lymphoma, nonhodgkins
  • NHL
  • NHL, NOS
  • non-Hodgkin's lymphoma (NHL)
  • non-Hodgkin's lymphoma
  • lymphoma, non-Hodgkin's
  • nonhodgkin lymphoma
  • non-Hodgkin lymphoma
  • non-Hodgkins lymphoma
  • nonhodgkins lymphoma
  • lymphoma, nonhodgkin
  • lymphoma, non-Hodgkins
Mapped term(s) 12 mapped terms
  • ICDO:9591/3
  • NCIT:C3211
  • MESH:D008228
  • DOID:0060060
  • ICD10:C85
  • MONDO:0018908
  • ICD10:C83
  • Orphanet:547
  • NCIt:C3211
  • MedDRA:10029547
  • ONCOTREE:NHL
  • UMLS:C0024305

Associated Polygenic Score(s)

Polygenic Score (PGS) ID PGS Name PGS Publication (PGP) ID Reported Trait Mapped Trait(s) (Ontology) Number of Variants PGS Scoring File (FTP Link)
PGS000080 CC_NHL PGP000050 Graff RE et al. bioRxiv (2020) Pre Non-Hodgkin's lymphoma non-Hodgkins lymphoma 19 http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000080/ScoringFiles/PGS000080.txt.gz

PGS 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 ID)
Evaluated Score PGS Sample Set ID
(PSS ID)
Performance Source Trait PGS Effect Sizes
(per SD change)
PGS Classification Metrics Other Metrics Covariates Included in the Model PGS Performance: Other Relevant Information
PPM000200 PGS000080 (CC_NHL) PSS000119 PGP000050
Graff RE et al. (2020)
Pre
Reported Trait: Non-Hodgkin's lymphoma OR: 1.25[1.2, 1.3] Genotyping reagent kit (GERA cohort only), genotyping array (UK Biobank only), age, sex, 10 PCs. Results from meta-analysis of GERA and UKB

Evaluated Samples

PGS Sample Set ID
(PSS ID)
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
PSS000119 Cancer diagnoses were obtained from reigstry data in GERA, and ICD-9/10 codes mapped to ICD-O-3 codes in UK Biobank. Cancers for this phenotype were classified using the following SEER site recode(s): 33041, and 33042
[
  • 2,411 cases
  • , 410,354 controls
]
,
46.0 % Male samples
Mean = 58.0 years European GERA, UKB