Trait: non-alcoholic fatty liver disease severity measurement

Experimental Factor Ontology (EFO) Information
Identifier EFO_0008421
Description Quantification of the severity of non-alcoholic fatty liver disease, typically by a histological grading.
Trait category
Other measurement
Mapped term(s) PMID:28918882

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)
PGS000656 NAS-11 PGP000119 Namjou B et al. BMC Med (2019) Non-alcoholic fatty liver disease activity score non-alcoholic fatty liver disease severity measurement 11 http://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000656/ScoringFiles/PGS000656.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
PPM001342 PGS000656 (NAS-11) PSS000584 PGP000119
Namjou B et al. (2019)
Reported Trait: Nonalcoholic fatty liver disease severity (NAFLD activity score above 5) AUROC: 0.76 sex, age, PCs (1-3), BMI, study site/medical centre

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
PSS000584 Controls are cases with Nonalcoholic fatty liver disease activity score <5 and cases are those with a score >5. Case inclusion ICD codes: ICD9=571.5, ICD9=571.8, ICD9=571.9, ICD10=K75.81, ICD10=K76.0, ICD10=K76.9
[
  • 79 cases
  • , 156 controls
]
European eMERGE