NBDC Research ID: hum0053.v1

 

SUMMARY

Aims: Malignant mesothelioma which is associated with asbestos exposure is highly aggressive and refractory to conventional therapeutic modalities. The aim of this study is identification of new targets for molecular target therapy by next generation sequencing and application of the genomic data to new diagnostic and therapeutic strategies for malignant mesothelioma patients.

Methods: We extracted genomic DNAs from surgical specimens or established mesothelioma cell lines from Japanese malignant mesothelioma patients. We also extracted control DNAs from peripheral blood of the same patients. We performed whole exome sequencing using these DNAs.

Participants/Materials: 38 Malignant mesothelioma patients

 

Data Set IDType of DataCriteriaRelease Date
JGAS00000000062 NGS (Exome) Controlled-Access (Type I) 2016/07/20

*Release Note

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MOLECULAR DATA

JGAS00000000062

Participants/Materials

38 Japanese Malignant mesothelioma patients

(38 pairs of tumor tissue and non-tumor tissue: 76 samples)

Targets Exome
Target Loci for Capture Methods -
Platform Illumina [HiSeq 2000/2500]
Library Source

Genomic DNAs extracted from surgical specimens or established mesothelioma cell lines from Japanese malignant mesothelioma patients

Control DNAs from peripheral blood cells of the same patients

Cell Lines -
Library Construction (kit name) SureSelect Human All Exon V4 or V5 plus lncRNA (Agilent Technologies)
Fragmentation Methods Ultrasonic fragmentation (Covaris E220)
Spot Type Paired-end
Read Length (without Barcodes, Adaptors, Primers, and Linkers) 100 bp x 2
Japanese Genotype-phenotype Archive Data set ID JGAD00000000062
Total Data Volume 596 GB (bam [76 files / ref: hg19])
Comments (Policies) NBDC policy & P-DIRECT policy

 

DATA PROVIDER

Principal Investigator: Takashi Nakano

Affiliation: Hyogo College of Medicine, Division of Respiratory Medicine

Project / Group Name: Project for Development of Innovative Research on Cancer Therapeutics (P-DIRECT)

URL: http://www.pref.aichi.jp/cancer-center/english/ri/01division/03molecular/index.html

Funds / Grants (Research Project Number):

NameTitleProject Number
Project for Development of Innovative Research on Cancer Therapeutics (P-DIRECT) Development of therapeutic modalities against intractable cancers via identification of new therapeutic targets with molecular profiling (Identification of new molecular targets with profiling of malignant mesothelioma) 15cm0106068h0005

 

PUBLICATIONS

TitleDOIData Set ID
1 - - -

 

USERS (Controlled-Access Data)

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