NBDC Research ID: hum0127.v1
Click to Latest version.
SUMMARY
Aims: To clarify molecular biological features and develop new cancer treatments by searching for mutations in the POLE gene region in tumor tissues and the ones frequently present in genes involved in the development and progression of cancers
Methods: DNAs extracted from peripheral blood cells (non-tumor tissues) and tumor tissues are analyzed by whole-exome sequencing
Participants/Materials: 91 hypermutated solid tumors that obtained from patients who take surgeries to remove tumor tissues at the Shizuoka Cancer Center Hospital
URL: https://www.scchr.jp/en/institute/projecthope.html
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000130 | NGS (Exome) | Controlled-access (Type I) | 2020/04/14 |
*Data users need to apply an application for Using NBDC Human Data to reach the Controlled-access Data. Learn more
MOLECULAR DATA
| Participants/Materials | 91 cancer patients with hypermutator tumors harborig POLE mutations (ICD10: C00-D48) |
| Targets | Exome |
| Target Loci for Capture Methods | - |
| Platform | Thermo Fisher Scientific [Ion Proton] |
| Library Source | DNAs extracted from peripheral blood cells (non-tumor tissues) and surgically dissected tumor tissues (tumor tissues) |
| Cell Lines | - |
| Library Construction (kit name) | Ion AmpliSeq Exome RDY Kit |
| Fragmentation Methods | - |
| Spot Type | Single-end, multiplex PCR |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 180 bp |
| Mapping Methods | Torrent Suite |
| QC methods | Torrent Suite |
| Mutation Detection Methods | Torrent Suite plugin Variant Caller |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000141 |
| Total Data Volume | 75 MB (NBDC-91sample.renamed.vcf [ref: hg19]) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Ken Yamaguchi
Affiliation: Shizuoka Cancer Center
Project / Group Name: Project HOPE (High-tech Omics-based Patient Evaluation) / Shizuoka Cancer Center
URL: https://www.scchr.jp/en/institute/projecthope.html
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| - |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Implementation of individualized medicine for cancer patients by multiomics-based analyses—the Project HOPE— | doi: 10.2220/biomedres.35.407 | |
| 2 | Molecular profiling and sequential somatic mutation shift in hypermutator tumours harbouring POLE mutations | doi: 10.1038/s41598-018-26967-4 | JGAD000141 |
USERS (Controlled-access Data)
| Principal Investigator: | Affiliation: | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|
