Development of bioinformatic tools for cancer immunotherapy
| Project/Area Number |
20700419
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| Research Category |
Grant-in-Aid for Young Scientists (B)
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| Allocation Type | Single-year Grants |
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| Research Field |
Medical systems
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| Research Institution | Shizuoka Cancer Center Research Institute |
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Principal Investigator |
NAKAMURA Yoji Shizuoka Cancer Center Research Institute, 中央水産研究所・水産遺伝子解析センター, 研究員 (90463182)
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| Project Period (FY) |
2008 – 2010
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| Project Status |
Completed (Fiscal Year 2010)
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| Budget Amount *help |
¥4,030,000 (Direct Cost: ¥3,100,000、Indirect Cost: ¥930,000)
Fiscal Year 2010: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2009: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
Fiscal Year 2008: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
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| Keywords | 医療情報システム / 免疫治療 / アルゴリズム / 癌 / 蛋白質 / 免疫学 / バイオインフォマティクス / タンパク質 / パイオインフォマティクス |
|---|
| Research Abstract |
I developed an integrated database of immunoglobulin (Ig or antibody) and T-cell receptor (TCR) data reported in cancer studies (the Cancer-related Immunological Gene Database [CIG-DB]). This database is designed as a platform to explore public human and murine Ig/TCR genes sequenced in cancer studies, and a total of 2,081 cancer-related Ig and TCR entries are tabularized. The CIG-DB is equipped with search engines for amino acid sequences and MEDLINE references, sequence analysis tools, and a 3D viewer. This database is accessible without charge or registration at http://www.scchr-cigdb.jp/, and the search results are freely downloadable.
In addition, I developed an in silico docking simulation assay system of binding affinity between HLA-A24 protein and A24-restricted peptides using two softwares, AutoDock and MODELLER, and a crystal structure of HLA-A24 protein in the Protein Data Bank (PDB). I compared the current assay system with the previous method in terms of the prediction capability using MHC stabilization and peptide-stimulated CTL induction assays for carcinoembryonic antigen (CEA) and other HLA-A24 peptides. The result suggested that the current in silico assay system have potential advantages in efficiency of epitope prediction over the previous method.
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Report
(4 results)
Research Products
(10 results)
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[Journal Article] Identification of melanoma antigens using a Serological Proteome Approach (SERPA).2010
Author(s)
Suzuki A, Iizuka A, Komiyama M, Takikawa M, Kume A, Tai S, Ohshita C, Kurusu A, Nakamura Y, Yamamoto A, Yamazaki N, Yoshikawa S, Kiyohara Y, Akiyama Y.
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Journal Title
Cancer Genomics Proteomics. Vol.7
Pages: 17-23
Related Report
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[Journal Article] Identification of melanoma antigens using a Serological Proteome Approach(SERPA).2010
Author(s)
Suzuki A, Iizuka A, Komiyama M, Takikawa M, Kume A, Tai S, Ohshita C, Kurusu A, Nakamura Y, Yamamoto A, Yamazaki N, Yoshikawa S, Kiyohara Y, Akiyama Y.
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Journal Title
Cancer Genomics Proteomics 7巻
Pages: 17-23
Related Report
Peer Reviewed
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