Analyzing Nucleotide Sequences of Influenza Viruses Based on Phylogenetic Distance between Positions
| Project/Area Number |
25540137
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| Research Category |
Grant-in-Aid for Challenging Exploratory Research
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| Allocation Type | Multi-year Fund |
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| Research Field |
Life / Health / Medical informatics
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| Research Institution | Kyushu Institute of Technology |
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Principal Investigator |
HIRATA Kouichi 九州工業大学, 大学院情報工学研究院, 教授 (20274558)
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| Co-Investigator(Kenkyū-buntansha) |
ITO Kimihito 北海道大学, 人獣共通感染症リサーチセンター, 教授 (60396314)
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| Project Period (FY) |
2013-04-01 – 2015-03-31
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| Project Status |
Completed (Fiscal Year 2014)
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| Budget Amount *help |
¥3,640,000 (Direct Cost: ¥2,800,000、Indirect Cost: ¥840,000)
Fiscal Year 2014: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Fiscal Year 2013: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
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| Keywords | 進化系統樹 / 再ラベル進化系統樹 / 剪定進化系統樹 / 剪定距離 / 合致部分木マッピングカーネル / 葉間パスカーネル / インフルエンザウイルス / 進化系統樹カーネル / 塩基配列カーネル / 機械学習 / 進化系統距離 |
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| Outline of Final Research Achievements |
In this research, we have analyzed nucleotide sequences of influenza A viruses based on the relabeled phylogenetic tree obtained by replacing labels of leaves in a reconstructed phylogenetic tree with nucleotides at a position and the trimmed phylogenetic tree obtained by trimming binary branches in a relabeled phylogenetic tree as possible. First, by introducing a trim distance between trimmed phylogenetic trees, we have applied the clustering to positions based on the trim distance as pandemic analysis for influenza A viruses. Next, by introducing an agreement subtree mapping kernel and a leaf-path kernel that are tractable and applicable to phylogenetic trees, we have classified relabeled and trimmed phylogenetic trees as pandemic analysis, regional analysis and analysis of positions in packaging signals for influenza A viruses.
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Report
(3 results)
Research Products
(19 results)
