2013 Fiscal Year Final Research Report
Development of computational system to accurately predict nuclear localization signals and nuclear export signals in proteins
| Project/Area Number |
22510217
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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 |
System genome science
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| Research Institution | Kazusa DNA Research Institute (2011-2013)
Iwate Biotechnology Research Center (2010) |
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Principal Investigator |
KOSUGI Shunichi 公益財団法人かずさＤＮＡ研究所, 植物ゲノム研究部, プロジェクト研究員 (30365457)
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| Project Period (FY) |
2010-04-01 – 2013-03-31
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| Keywords | ゲノム / プロテオーム / バイオインフォマティクス / 解析技術 / 核移行シグナル / 核外移行シグナル / モチーフ / 予測 |
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| Research Abstract |
In this study, I developed a plant-optimized version of cNLS Mapper, a prediction tool of nuclear localization signals, by creating an activity-based profile of a plant-specific NLS class. I also developed a computational tool (NESmapper) for nuclear export signal (NES) prediction, by using newly created activity-based profiles for all the NES subclasses An evaluation test for NES prediction with test data sets showed that NESmapper predicted over 80% of positive NESs with ≤10% of false positive rate. Comparison of the prediction performance of NESmapper with those of other available tools (i.e., NESsential, NetMES, and Wregex) demonstrated that NESmapper outperforms other tools. NESmapper and also its combined version with cNLS Mapper will be provided for the scientific community as a valuable tool to predict functional NESs and NLSs.
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[Journal Article]2013
Author(s)
Shunichi Kosugi, Satoshi Natsume, Kentaro Yoshida, Daniel MacLean, Liliana Cano, Sophien Kamoun, and Ryohei Terauchi
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Journal Title
PLoS One
Volume: 8
Pages: e75402
DOI
Peer Reviewed
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[Journal Article]2013
Author(s)
Hiroki Takagi, Akira Abe, Kentaro Yoshida, Shunichi Kosugi, Satoshi Natsume, Chikako Mitsuoka, Aiko Uemura, Hiroe Utsushi, Muluneh Tamiru, Shohei Takuno, Hideki Innan, Liliana M. Cano, Sophien Kamoun, and Ryohei Terauchi
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Journal Title
Plant Journal
Volume: 74
Pages: 174-183
DOI
Peer Reviewed
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[Journal Article]2013
Author(s)
Rym Fekih, Hiroki Takagi, Muluneh Tamiru, Akira Abe, Satoshi Natsume, Hiroko Yaegashi, Shailendra Sharma, Shiveta Sharma, Hiroyuki Kanzaki, Hideo Matsumura, Hiromasa Saito, Chikako Mitsuoka, Hiroe Utsushi, Aiko Uemura, Eiko Kanzaki, Shunichi Kosugi, Kentaro Yoshida, Liliana Cano, Sophien Kamoun, and Ryohei Terauchi
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Journal Title
PLoS One
Volume: 8
Pages: e68529
DOI
Peer Reviewed
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[Journal Article]2013
Author(s)
Jeffrey A. Fawcett, Tomoyuki Kado, Eriko Sasaki, Shohei Takuno, Kentaro Yoshida, Ryuichi P. Sugino, Shunichi Kosugi, Satoshi Natsume, Chikako Mitsuoka, Aiko Uemura, Hiroki Takagi, Akira Abe, Takashige Ishii, Rhohei Terauchi, and Hideki Innan
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Journal Title
PLoS One
Volume: 8
Pages: e83720
DOI
Peer Reviewed
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[Journal Article]2012
Author(s)
Akira Abe, Shunichi Kosugi, Kentaro Yoshida, Satoshi Natsume, Hiroki Takagi, Hiroyuki Kanzaki, Hideo Matsumura, Kakoto Yoshida, Chikako Mitsuoka, Muluneh Tamiru, Hideki Innan, Liliana Cano, Sophien Kamoun, and Ryohei Terauchi
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Journal Title
Nature Biotechnology
Volume: 30
Pages: 174-178
DOI
Peer Reviewed
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[Journal Article]2012
Author(s)
Kosuke Okazaki1, Naomi Nakayama, Yuko Nariai, Hiroaki Kato, Kentaro Nakayama, Kohji Miyazaki, Riruke Maruyama, Shunichi Kosugi, Takeshi Urano, and Gyosuke Sakashita
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Journal Title
Carcinogenesis
Volume: 33
Pages: 1854-1862
DOI
Peer Reviewed
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