NBDC Research ID: hum0418.v1
SUMMARY
Aims: Genome profiling to estimate both adverse events and response of chemotherapy in cancer patients
Methods: Genome profiling using next generation sequencers
Participants/Materials: Cancer patient who will receive chemotherapy
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000662 | NGS (Target Capture) | Controlled-access (Type I) | 2025/02/17 |
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| Participants/Materials |
Cancer patient who will receive chemotherapy (ICD10: C00-D48): 507 cases 1018 samples tumor tissues and non-tumor tissues (peripheral blood cells): 1018 samples including 2 samples from 1 case having multiple cancers and 2 samples from 1 case having primary tumor and relapsed tumor |
| Targets | Target Capture |
| Target Loci for Capture Methods | NCC Oncopanel test (114 genes) |
| Platform | Illumina [MiSeq, NextSeq] |
| Library Source | DNA was extracted from tumor tissues and peripheral blood cells |
| Cell Lines | - |
| Library Construction (kit name) |
SureSelect XT reagent KAPA Hyper Prep kit |
| Fragmentation Methods | Ultrasonic fragmentation (Covaris) |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 151 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000792 |
| Total Data Volume | 2.7 TB (fastq, bam [ref: hg19]) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Takashi Kohno
Affiliation: Division of Genome Biology, National Cancer Center Research Institute
Project / Group Name: TOP-GEAR Project
URL: UMIN ID: UMIN000011141
https://upload.umin.ac.jp/cgi-open-bin/ctr/ctr_view.cgi?recptno=R000013046
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| Program for an Integrated Database of Clinical and Genomic Information, Japan Agency for Medical Research and Development (AMED) | Pan-Japan storage of clinical and genomic information on advanced solid and hereditary cancers for precision cancer medicine | JP18kk0205004 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Feasibility and utility of a panel testing for 114 cancer‐associated genes in a clinical setting: A hospital‐based study | doi: 10.1111/cas.13969 | JGAD000792 |
| 2 | A computational tool to detect DNA alterations tailored to formalin-fixed paraffin-embedded samples in cancer clinical sequencing | doi: 10.1186/s13073-018-0547-0 | JGAD000792 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
