NBDC Research ID: hum0485.v1
SUMMARY
Aims: Immunological and genomic analyses to predict chemotherapy response in gastric cancer
Methods: shallow whole-genome sequencing (sWGS), RNA sequencing (RNA-seq)
Participants/Materials: Tumor and non-tumor tissues of 65 Japanese gastric cancer patients
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000754 | NGS (WGS, RNA-seq) | Controlled-access (Type I) | 2025/04/28 |
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MOLECULAR DATA
| Participants/Materials |
gastric cancer (ICD10：C16.9): 65 cases tumor: 65 samples non-tumor: 65 samples |
| Targets | WGS |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2500] |
| Library Source | DNAs extracted from tumor and non-tumor tissues |
| Cell Lines | - |
| Library Construction (kit name) | TruSeq Nano DNA Library Prep Kit |
| Fragmentation Methods | Ultrasonic fragmentation (Covaris) |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 126 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000894 |
| Total Data Volume | 666.7 GB (fastq) |
| Comments (Policies) | NBDC policy |
| Participants/Materials |
gastric cancer (ICD10：C16.9): 65 cases tumor: 65 samples |
| Targets | RNA-seq |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2000/2500] |
| Library Source | RNAs extracted from tumor tissues |
| Cell Lines | - |
| Library Construction (kit name) | KAPA RNA HyperPrep Kit with RiboErase |
| Fragmentation Methods | Heat treatment |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 126 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000894 |
| Total Data Volume | 666.7 GB (fastq) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Hidewaki Nakagawa
Affiliation: Laboratory of Genome Sequencing Analysis, RIKEN Center for Integrative Medical Sciences
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| Project for Cancer Research and Therapeutic Evolution (P-CREATE), Japan Agency for Medical Research and Development (AMED) | Search for seeds for the development of novel immunotherapies and combined immunotherapies by cancer genome analysis | JP20cm0106552 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Predicting chemotherapy responsiveness in gastric cancer through machine learning analysis of genome, immune, and neutrophil signatures | doi: 10.1007/s10120-024-01569-4 | JGAD000894 |
| 2 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
