NBDC Research ID: hum0188.v1
SUMMARY
Aims: Screening of therapeutic targets in gastric cancer cell lines
Methods: Whole Exome sequecing and RNA-seq
Participants/Materials: Gastric cancer cell lines, OCUM-8 and OCUM-9
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000179 | NGS (Exome、RNA-seq) | Controlled-access (Type I) | 2019/06/28 |
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MOLECULAR DATA
| Participants/Materials | Gastric cancer cell lines: OCUM-8 and OCUM-9 |
| Targets | Exome |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2500] |
| Library Source | DNAs extracted from Japanese gastric cancer cell lines |
| Cell Lines | Cell lines were provided by Dr. Masakazu Yashiro at Osaka City University |
| Library Construction (kit name) | Ultrasonic fragmentation (Covaris) |
| Fragmentation Methods | SureSelect Human All Exon V5 |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 103 bp / 104 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000260 |
| Total Data Volume | 95 GB (fastq, bam [ref: hg38]) |
| Comments (Policies) | NBDC policy |
| Participants/Materials | Gastric cancer cell lines: OCUM-8 and OCUM-9 |
| Targets | RNA-seq |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2500] |
| Library Source | RNAs extracted from Japanese gastric cancer cell lines |
| Cell Lines | Cell lines were provided by Dr. Masakazu Yashiro at Osaka City University |
| Library Construction (kit name) | NEBNext Ultra Directional RNA Library Prep Kit |
| Fragmentation Methods | Heat treatment |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 103 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000260 |
| Total Data Volume | 95 GB (fastq, bam [ref: hg38]) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Hiroyuki Mano
Affiliation: Division of Cellular Signaling, National Cancer Center Research Institute
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| Leading Advanced Projects for medical innovation (LEAP), Advanced Research & Development Programs for Medical Innovation, Japan Agency for Medical Research and Development (AMED) | Project for Exploration of Therapeutic Targets in Cancer | JP17am0001001 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Identification of candidates for driver oncogenes in scirrhous-type gastric cancer cell lines. | doi: 10.1111/cas.14111 | JGAD000260 |
| 2 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
| Michiaki Hamada | Faculty of Science and Engineering, Waseda University | Japan | Construction of RNA-targeted Drug Discovery Database | JGAD000260 | 2022/12/26-2025/03/31 |
