| Publication Information (EuropePMC) | |
| Title | Causal relationship of hepatic fat with liver damage and insulin resistance in nonalcoholic fatty liver. |
| PubMed ID | 29280273(Europe PMC) |
| doi | 10.1111/joim.12719 |
| Publication Date | Dec. 27, 2017 |
| Journal | J Intern Med |
| Author(s) | Dongiovanni P, Stender S, Pietrelli A, Mancina RM, Cespiati A, Petta S, Pelusi S, Pingitore P, Badiali S, Maggioni M, Mannisto V, Grimaudo S, Pipitone RM, Pihlajamaki J, Craxi A, Taube M, Carlsson LMS, Fargion S, Romeo S, Kozlitina J, Valenti L. |
| 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) |
|---|---|---|---|---|---|---|
| PGS000865 (PRS-HFC) |
PGP000212 | Dongiovanni P et al. J Intern Med (2017) |
Hepatic fat content | liver fat measurement | 4 | https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000865/ScoringFiles/PGS000865.txt.gz | |
| PGS000866 (PRS-HFC_SOS) |
PGP000212 | Dongiovanni P et al. J Intern Med (2017) |
Hepatic fat content | liver fat measurement | 4 | https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000866/ScoringFiles/PGS000866.txt.gz |
|
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 |
|---|---|---|---|---|---|---|---|---|---|
| PPM002408 | PGS000865 (PRS-HFC) |
PSS001089| Multi-ancestry (including European)| 4,570 individuals |
PGP000212 | Dongiovanni P et al. J Intern Med (2017) |
Reported Trait: Steatosis | — | — | R²: 0.035 | — | Only 4,455 of the 4,570 individuals from DaHS were utilised as they had available genotype, phenotype and covariate data. |
| PPM002409 | PGS000865 (PRS-HFC) |
PSS001089| Multi-ancestry (including European)| 4,570 individuals |
PGP000212 | Dongiovanni P et al. J Intern Med (2017) |
Reported Trait: Alanine aminotransferase levels | — | — | Association p-value (<): 0.001 | Age, sex, ethnicity, body mass index, statin use | Only 4,455 of the 4,570 individuals from DaHS were utilised as they had available genotype, phenotype and covariate data. |
| PPM002410 | PGS000866 (PRS-HFC_SOS) |
PSS001090| European Ancestry| 3,329 individuals |
PGP000212 | Dongiovanni P et al. J Intern Med (2017) |
Reported Trait: Alanine aminotransferase levels | — | — | Association p-value (<): 1.00e-14 | Age, sex, ethnicity, body mass index, statin use | — |
|
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 |
|---|---|---|---|---|---|---|---|---|
| PSS001089 | Plasma levels of lipids and lipoproteins were measured by standard enzymatic assays. Hypertension was defined as systolic blood pressure ≥140 mm Hg or diastolic blood pressure ≥90 mm Hg, or self‐reported antihypertensive treatment. Of the 4,570 individuals, 1,496 had hypertension. | — | 4,570 individuals, 43.0 % Male samples |
Mean = 45.0 years Sd = 11.0 years |
European, African American or Afro-Caribbean, Hispanic or Latin American, Not reported | European = 1,351, African American or Afro-Caribbean = 2,355, Hispanic or Latin American = 743, Not reported = 121 | DaHS | 40.12% sample overlap with this dataset and the dataset used to develop PRS-HFC. |
| PSS001090 | All individuals were identified as being severly obese. Homeostasis model assessment-insulin resistance index was calculated from fasting levels of glucose and insulin. Plasma levels of lipids and lipoproteins were measured by standard enzymatic assays. | — | 3,329 individuals, 30.0 % Male samples |
Mean = 48.0 years Sd = 6.0 years |
European | — | SOS | — |