Development of a novel bioinformatics method to analyze big genome sequence data for efficient knowledge discovery
| Project/Area Number |
26330327
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| Research Category |
Grant-in-Aid for Scientific Research (C)
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| Allocation Type | Multi-year Fund |
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| Section | 一般 |
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| Research Field |
Life / Health / Medical informatics
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| Research Institution | Niigata University |
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Principal Investigator |
Abe Takashi 新潟大学, 自然科学系, 准教授 (30390628)
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| Project Period (FY) |
2014-04-01 – 2017-03-31
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| Project Status |
Completed (Fiscal Year 2016)
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| Budget Amount *help |
¥4,810,000 (Direct Cost: ¥3,700,000、Indirect Cost: ¥1,110,000)
Fiscal Year 2016: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2015: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2014: ¥2,210,000 (Direct Cost: ¥1,700,000、Indirect Cost: ¥510,000)
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| Keywords | 一括学習型自己組織化マップ / 自己圧縮BLSOM / 連続塩基組成 / 連続アミノ酸組成 / メタゲノム / 系統推定 / 自己圧縮 / 生物系統推定 / タンパク質機能推定 / 比較ゲノム / 連続塩基 / 連続アミノ酸 |
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| Outline of Final Research Achievements |
As the result of extensive decoding of genome sequences, novel tools are needed for comprehensive analyses of available big sequence data. We previously developed a BLSOM, which can cluster genomic fragment sequences according to phylotype solely dependent on oligonucleotide composition. Howerver, a large-scale BLSOM needs a large computational resource.
We have developed Self-Compressing BLSOM (SC-BLSOM) for reduction of computation time, which allows us comprehensive analysis of big sequence data. The strategy of SC-BLSOM is to hierarchically construct BLSOMs according to data class such as phylotype. SC-BLSOM could be constructed faster than BLSOM and cluster the sequences according to phylotype with high accuracy. We have also developed a new method to predict protein function on the basis of similarity in oligonucleotide composition. The proteins could be related to function-known proteins. These methods are useful to analyze big sequence data for efficient knowledge discovery.
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Report
(4 results)
Research Products
(26 results)
