NBDC Research ID: hum0119.v1
SUMMARY
Aims: Discovery of genetic factors for NAFLD, NASH and NASH derived hepatocellular carcinoma
Methods: Genome scan by SNP array
Participants/Materials: NAFLD patients (include 580 NASH and 58 NASH-HCC) : 902, controls : 7672
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000126 | GWAS for NAFLD, NASH, and NASH-HCC | Controlled-access (Type I) | 2019/01/31 |
*Data users need to apply an application for Using NBDC Human Data to reach the Controlled-access Data. Learn more
MOLECULAR DATA
| Participants/Materials |
NAFLD (ICD10: K76.0): 264 patients NASH (ICD10: K75.81): 580 patients NASH-HCC (ICD10: C220): 58 patients 7672 healthy controls |
| Targets | genome wide SNPs |
| Target Loci for Capture Methods | - |
| Platform |
Illumina [Human610-Quad BeadChip] Illumina [HumanCoreExome BeadChip] Illumina [HumanOmni2.5-Quad BeadChip] |
| Library Source | DNAs extracted from peripheral blood cells |
| Cell Lines | - |
| Reagents (Kit, Version) |
Illumina Human610-Quad BeadChip Kit Illumina HumanCoreExome BeadChip Kit Illumina HumanOmni2.5-Quad BeadChip Kit |
| Genotype Call Methods (software) | GenomeStudio (Illumina) |
| Filtering Methods |
Exclusion criteria : sample call-rate < 0.95, PCA outlier of Japanese population, encrypted relatedness (pihat > 0.38) SNP call-rate < 0.99, HWE-p < 1e-6, MAF< 0.01 |
| Marker Number (after QC) | 93,606 SNPs (hg19) |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000137 |
| Total Data Volume | 26 MB (xlsx) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Fumihiko Matsuda
Affiliation: Center for Genomic Medicine, Kyoto University Graduate School of Medicine
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| Health and Labour Sciences Research Grant for Research on Hepatitis | Research and development of pathophysiology, diagnostic tool and treatment in nonalcoholic fatty liver disease | H20-Hepatitis-general-008 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Risk estimation model for nonalcoholic fatty liver disease in the Japanese using multiple genetic markers | doi: 10.1371/journal.pone.0185490 | JGAD000137 |
| 2 |
USERS (Controlled-access Data)
| Principal Investigator | Affiliation | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|
| Tetsuo Takehara | Gastroenterology and Hepatology, Graduate School of Medicine, Osaka University | A study of gene polymorphism and mutation to predict the progression of chronic liver disease | JGAD000137 | 2021/03/16-2022/03/31 |
