NBDC Research ID: hum0034.v1
SUMMARY
Aims: Identifying new therapeutic targets of small cell lung cancer (SCLC), genome-wide mutation analysis has been performed.
Methods: Genomic DNA was extracted from formalin-fixed or methanol-fixed tissue samples. 71 Mb of DNA fragments containing whole coding exons were concentrated using SureSelect Human All Exon V4+UTRs Kit (Agilent Technologies) followed by 100-bp paired end sequencing by HiSeq 2000 (Illumina).
Participants/Materials: 51 of 1042 cases of pathologically diagnosed small seen lung cancer that were registered to National Cancer Hospital East Lung Cancer Database in 1992-2012, and which surgically resected or biopsy samples were suitable for DNA extraction for further analyses.
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000037 | Exome (NGS) | Controlled-access (Type I) | 2015/10/01 |
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MOLECULAR DATA
| Participants/Materials | 51 SCLCs |
| Targets | Exome |
| Target Loci for Capture Methods |
- |
| Platform | Illumina [HiSeq 2000] |
| Library Source | Genomic DNA extracted from formalin-fixed or methanol-fixed tissue samples |
| Cell Lines | - |
| Library Construction (kit name) | SureSelect Human All Exon V4+UTRs Kit |
| Fragmentation Methods | Ultrasonic fragmentation (Covaris S220) |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 100 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000037 |
| Total Data Volume | 3 TB |
| Comments (Policies) |
DATA PROVIDER
Principal Investigator: Koichi Goto
Affiliation: Department of Thoracic Oncology, National Cancer Center Hospital East
Project / Group Name: Development of molecular targeted therapy for small cell lung cancer by comprehensive genome analysis
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| KAKENHI Grant-in-Aid for Scientific Research (B) | Exploring therapeutic targets and investigating molecular carcinogenesis of small cell lung cancer by comprehensive genome analysis | 24300346 |
| KAKENHI Grant-in-Aid for Young Scientists (B) | Development of molecular targeted therapy for large cell neuroendocrine carcinoma by targeting genome sequencing | 26870876 |
| National Cancer Center Research and Development Fund | Development of the biostatistics and bioinformatics platforms for cancer research | 23-A-8 |
| National Cancer Center Research and Development Fund | Development of the platforms for early phase clinical trials | 23-A-15 |
| Project for Development of Innovative Research on Cancer Therapeutics (P-DIRECT), Japan Agency for Medical Research and Development (AMED) | Development of molecular targeted therapy for small cell lung cancer by comprehensive genome analysis | JP15cm0106063 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Therapeutic priority of the PI3K/AKT/mTOR pathway in small cell lung cancers as revealed by a comprehensive genomic analysis. | doi: 10.1097/JTO.0000000000000250 | JGAD000037 |
USERS (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
| Anton Berns | The Netherlands Cancer Institute, Division of Molecular Genetics | JGAD000037 | 2016/03/30-2017/11/30 | ||
| Hirofumi Nakaoka | Department of Cancer Genome Research, Sasaki Institute | Japan | Genetic analysis of lung cancer | JGAD000037 | 2022/08/06-2023/03/31 |
