NBDC Research ID: hum0445.v1
SUMMARY
Aims: The objective of this project is to analyze genomic aberrations and gene expression changes such as mutations, deletions, amplifications, and hypermethylation in human lung cancer cells at the somatic cell level, and to contrast these with clinicopathological information to elucidate the molecular mechanisms and characteristics of lung cancer development and progression at the genetic level.
Methods: RNA-seq
Participants/Materials: Lung adenocarcinoma
URL: https://www.ncc.go.jp/en/ri/division/genome_biology/project/index.html
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000756 | NGS (RNA-seq) | Controlled-access (Type I) | 2025/05/19 |
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MOLECULAR DATA
| Participants/Materials |
Lung adenocarcinoma (ICD10: C34.1, C34.2, C34.3): 362 cases tumor tissue: 362 samples non-tumor tissue: 8 samples |
| Targets | RNA-seq |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2500, Genome Analyzer IIx] |
| Library Source | RNAs extracted from tumor/non-tumor tissues |
| Cell Lines | - |
| Library Construction (kit name) |
TruSeq Stranded mRNA Library Prep Kit mRNA-Seq Sample Prep Kit TruSeq RNA Sample Prep Kit |
| Fragmentation Methods | Ultrasonic fragmentation (Covaris) |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 75 bp, 100 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000897 |
| Total Data Volume | 2.0 TB (fastq) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Takashi Kohno
Affiliation: Division of Genome Biology, National Cancer Center Research Institute
Project / Group Name: -
URL: https://www.ncc.go.jp/en/ri/division/genome_biology/project/index.html
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| The Advanced Research for Medical Products Mining Program of the National Institute of Biomedical Innovation (NIBIO) | Research aimed at a comprehensive exploration of drug targets based on genomic data in multi-layered disease omics analysis | 157974 |
| The Health, and Labor Sciences Research Expenses for Commission | Research on the establishment of a new treatment for advanced non-small cell lung cancer with RET fusion | 201409013B |
| KAKENHI Grant-in-Aid for Scientific Research (B) | Study on molecular procedures developing oncogene fusion-positive lung cancer | 26293200 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | KIF5B-RET fusions in lung adenocarcinoma | doi: 10.1038/nm.2644 | JGAD000897 |
| 2 | Development of lung adenocarcinomas with exclusive dependence on oncogene fusions | doi:10.1158/0008-5472.CAN-14-3282. | JGAD000897 |
| 3 | Druggable Oncogene Fusions in Invasive Mucinous Lung Adenocarcinoma | doi:10.1158/1078-0432.CCR-14-0107 | JGAD000897 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
