NBDC Research ID: hum0275.v1
SUMMARY
Aims: Through an integrated genetic study involving whole exome sequencing analysis, we delineate the landscape of genetic alterations in solid tumors.
Methods: We collected additional biopsied gastric tissues from nine subjects who underwent diagnostic endoscopy and biopsy for upper gastrointestinal symptoms. Genomic DNA isolated from each gland was subjected to whole exome sequencing.
Participants/Materials: Nine subjects without Helicobacter pylori (Hp) infection or gastric cancer were included as the healthy population. Two biopsies of normal gastric mucosa were obtained from each subject.
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000313 | NGS (Exome) | Controlled-access (Type I) | 2021/08/16 |
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MOLECULAR DATA
| Participants/Materials |
Nine subjects without Hp infection or gastric cancer (healthy population) normal gastric mucosa: 36 samples (4 samples/subject) peripheral blood: 9 samples (1 sample/subject) |
| Targets | Exome |
| Target Loci for Capture Methods | - |
| Platform | Illumina [NovaSeq 6000] |
| Library Source | DNAs extracted from gastric mucosa and peripheral blood cells |
| Cell Lines | - |
| Library Construction (kit name) | IDT Lotus DNA Library Prep Kit |
| Fragmentation Methods | Enzymatic Fragmentation |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 150 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000424 |
| Total Data Volume | 156.4 GB (bam [ref: GRCh38]) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Seishi Ogawa
Affiliation: Kyoto University Graduate School of Medicine
Project / Group Name: Comprehensive analysis of genetic abnormalities in solid tumors / Department of Pathology and Tumor Biology
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| Core Research and Evolutional Science and Technology, Advanced Research & Development Programs for Medical Innovation, Japan Agency for Medical Research and Development (AMED-CREST) | Tissue remodeling and functional deterioration associated with aging and inflammation | JP20gm1110011 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Indolent feature of Helicobacter pylori‑uninfected intramucosal signet ring cell carcinomas with CDH1 mutations | doi: 10.1007/s10120-021-01191-8 | JGAD000424 |
| 2 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
