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 PMID:28918882

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
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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)
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
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000656/ScoringFiles/PGS000656.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
PPM001342 PGS000656
(NAS-11)
 PSS000584|
European Ancestry|
235 individuals
 PGP000119 |
Namjou B et al. BMC Med (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) 		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 —