Function prediction of poorly-characterized protein genes found in genome sequences with high-performance supercomputers and its publication
| Project/Area Number |
20510194
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| Research Category |
Grant-in-Aid for Scientific Research (C)
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| Allocation Type | Single-year Grants |
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| Section | 一般 |
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| Research Field |
ゲノム情報科学
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| Research Institution | Nagahama Institute of Bio-Science and Technology |
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Principal Investigator |
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| Co-Investigator(Kenkyū-buntansha) |
ABE Takashi 長浜バイオ大学, バイオサイエンス学部, 助教 (30390628)
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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 |
¥4,810,000 (Direct Cost: ¥3,700,000、Indirect Cost: ¥1,110,000)
Fiscal Year 2010: ¥910,000 (Direct Cost: ¥700,000、Indirect Cost: ¥210,000)
Fiscal Year 2009: ¥910,000 (Direct Cost: ¥700,000、Indirect Cost: ¥210,000)
Fiscal Year 2008: ¥2,990,000 (Direct Cost: ¥2,300,000、Indirect Cost: ¥690,000)
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| Keywords | 高性能スーパーコンピュータ / タンパク質機能推定 / SOM / 自己組織化マップ / 地球シミュレータ / 系統推定分子マーカー |
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| Research Abstract |
Using Batch-Learning Self-Organizing Map"BLSOM"for di-, tri-and tetrapeptide compositions, we developed a system to enable separation(self-organization) of proteins by function. Analyzing oligopeptide frequencies in proteins previously classified into COGs(clusters of orthologous groups of proteins), BLSOMs could faithfully reproduce the COG classifications. This indicated that proteins, whose functions are unknown because of lack of significant sequence homology with function-known proteins, can be related to function-known proteins based on similarity in oligopeptide composition. BLSOM was applied to predict functions of vast quantities of proteins derived from mixed genomes in environmental samples.
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Report
(4 results)
Research Products
(91 results)
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[Journal Article] Role of Glucocorticoid Receptor in the Regulation of Cellular Sensitivity to Irinotecan Hydrochloride2009
Author(s)
T. Akagi, T. Fukagawa, Y. Kage, H. To, N. Matsunaga, S. Koyanagi, A. Uchida, A. Fujii, H. Iba, T. Ikemura, H. Aramaki, S. Higuchi, S.
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Journal Title
Journal of Pharmacological Sciences
Volume: 109
Issue: 2
Pages: 265-274
DOI
NAID
ISSN
1347-8613, 1347-8648
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[Presentation] Diversity of green-like ribulose-1, 5-bisphosphate carboxylase/oxygenase(RuBisCO) Large-subunit genes in an Antarctic moss pillar2009
Author(s)
R. Nakai, T. Abe, T. Baba, S. Imura, H. Kagoshima, H. Kanda, Y. Kohara, T. Naganuma, H. Niki, K. Yanagihara
Organizer
Xth SCAR International Biology Symposium
Place of Presentation
Hokkaido Univ., Sapporo
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