NBDC Research ID: hum0053.v1
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SUMMARY
Aims: Malignant pleural 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 pleural mesothelioma patients.
Methods: We extracted genomic DNAs from surgical specimens or established mesothelioma cell lines from Japanese malignant pleural 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 pleural mesothelioma patients
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000062 | NGS (Exome) | Controlled-access (Type I) | 2016/07/20 |
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MOLECULAR DATA
| Participants/Materials |
38 Malignant pleural 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 malignant pleural 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 Dataset ID | JGAD000062 |
| Total Data Volume | 596 GB (bam [76 files / ref: hg19]) |
| Comments (Policies) | NBDC 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: https://www.pref.aichi.jp/cancer-center/english/ri/01division/03cancer_biology/index.html
Funds / Grants (Research Project Number):
| Name | Title | Project 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) | JP15cm0106068 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | - | - | - |
USERS (Controlled-access Data)
| Principal Investigator: | Affiliation: | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|
