NBDC Research ID: hum0068.v1

 

SUMMARY

Aims: Establishing a method for detecting variations of lung adenocarcinoma

Methods: Amplicon sequencing by using of MinION (Nanopore)

Participants/Materials: Lung adenocarcinoma

URL: http://kero.hgc.jp/

 

Data Set IDType of DataCriteriaRelease Date
JGAS00000000065 NGS (PCR amplicon Seq) Controlled Access (Type I) 2017/07/10

*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

JGAS00000000065

Participants/Materials lung adenocarcinoma: 8 cases (7 samples)
Targets PCR amplicon Seq
Target Loci for Capture Methods

sample 1: Amplicons from EML4-ALK positive case (EML4-ALK region) and KIF5B-RET positive case (KIF5B-RET region) were mixed (1 sample)

sample 2 - 7: Amplicons from 6 cases (EGFR and KRAS regions) 

Platform Nanopore [MinION]
Library Source cDNA were synthesized from mRNA extracted from lung adenocarcinomas
Cell Lines -
Library Construction (kit name) Nanopore Sequencing Kit (Oxford Nanopore Technologies)
Fragmentation Methods PCR
Spot Type Single-end
Read Length (without Barcodes, Adaptors, Primers, and Linkers) 367 Mb
Japanese Genotype-phenotype Archive Data set ID JGAD00000000065
Total Data Volume 889 MB (fastq)
Comments (Policies) NBDC policy

 

DATA PROVIDER

Principal Investigator: Takashi Kono

Affiliation: Division of Genome Biology, National Cancer Center Research Institute

Project / Group Name: -

Funds / Grants (Research Project Number):

NameTitleProject Number
KAKENHI Grant-in-Aid for Scientific Research on Innovative Areas Platform for Advanced Genome Science 16H06279
KAKENHI Grant-in-Aid for Scientific Research on Innovative Areas Conquering cancer through neo-dimensional systems understanding; Sequencing and phasing cancer mutations using a nanopore sequencer MinION 16H01582

 

PUBLICATIONS

TitleDOIData Set ID
1 Sequencing and phasing cancer mutations in lung cancers using a long-read portable sequencer. doi: 10.1093/dnares/dsx027 JGAD00000000065
2

 

USRES (Controlled-Access Data)

Principal Investigator: Affiliation: Data in Use (Data Set ID)Period of Data Use