NBDC Research ID: hum0138.v1
Click to Latest version.
SUMMARY
Aims: To elucidate the oncogenic potential of regeneration nodules in cirrhotic liver.
Methods: whole exome sequencing and RNA sequencing
Participants/Materials: liver cirrhosis and hepatocellular carcinoma
| Data Set ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000134 | NGS (Exome, RNA-seq) | Controlled Access (Type I) | 2020/07/31 |
* Data users need to apply the Form 2 (Application Form for Using NBDC Human Data) to reach the Controlled Access Data. Learn more
MOLECULAR DATA
| Participants/Materials |
Liver cirrhosis (ICD10: K746): 1 case (10 samples) Hepatocellular carcinoma (ICD10: C220): 4 cases (4 samples) |
| Targets | Exome |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2500] |
| Library Source | DNAs extracted from tumor, non-tumor, and cirrhosis tissues |
| Cell Lines | - |
| Library Construction (kit name) | SureSelect Human All Exon v5 |
| Fragmentation Methods | Ultrasonic fragmentation |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 100 bp |
| Japanese Genotype-phenotype Archive Data set ID | JGAD000203 |
| Total Data Volume | 152 GB (bam [ref: GRCh37], fastq) |
| Comments (Policies) | NBDC policy |
| Participants/Materials | Liver cirrhosis (ICD10: K746): 9 cases (15 samples) |
| Targets | RNA-seq |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 4000] |
| Library Source | RNAs extracted from non-tumor and cirrhosis tissues |
| Cell Lines | - |
| Library Construction (kit name) | TruSeq RNA Sample Preparation v2 |
| Fragmentation Methods | Ultrasonic fragmentation |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 100 bp |
| Japanese Genotype-phenotype Archive Data set ID | JGAD000203 |
| Total Data Volume | 152 GB (bam [ref: GRCh37], fastq) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Atsushi Takai
Affiliation: Gastroenterology and Hepatology, Graduate School of Medicine, Kyoto University
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| KAKENHI Grant-in-Aid for Scientific Research (B) | Role of regeneration nodule in cirrhotic liver on tumorigenesis | 17H04158 |
PUBLICATIONS
| Title | DOI | Data Set ID | |
|---|---|---|---|
| 1 | Comprehensive analysis of genetic aberrations linked to tumorigenesis in regenerative nodules of liver cirrhosis. | doi: 10.1007/s00535-019-01555-z | JGAD000203 |
| 2 |
USRES (Controlled-Access Data)
| Principal Investigator: | Affiliation: | Data in Use (Data Set ID) | Period of Data Use |
|---|---|---|---|
