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.

 

Data Set IDType of DataCriteriaRelease Date
JGAS00000000037 Exome (NGS) Controlled-Access (Type I) 2015/10/01

*Release Note

* Data users need to apply the Form 2 (Application Form for Using NBDC Human Data) to reach the Controlled Access Data. Learn more

 

MOLECULAR DATA

JGAS00000000037

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 (Agilent Technologies)
Fragmentation Methods Ultrasonic fragmentation (Covaris S220)
Spot Type Paired-end
Read Length (without Barcodes, Adaptors, Primers, and Linkers) 100 bp
Japanese Genotype-phenotype Archive Data set ID JGAD00000000037
Total Data Volume 3 TB
Comments (Policies)

NBDC policy & P-DIRECT policy

 

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

URL:

Funds / Grants (Research Project Number):

NameTitleProject 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
P-DIRECT Development of molecular targeted therapy for small cell lung cancer by comprehensive genome analysis 15cm0106063h0005

 

PUBLICATIONS

TitleDOIData Set 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. JGAD00000000037

 

USERS (Controlled-Access Data)

Principal Investigator: Affiliation: Data in Use (Data Set ID)Period of Data Use
Anton Berns The Netherlands Cancer Institute, Division of Molecular Genetics JGAD00000000037 2016/03/30-2017/11/30