Impact of Nucleosome Positioning on Gene Coexpression Network Architecture
| Project/Area Number |
15K20863
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| Research Category |
Grant-in-Aid for Young Scientists (B)
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| Allocation Type | Multi-year Fund |
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| Research Field |
Genome biology
Plant molecular biology/Plant physiology
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| Research Institution | Tohoku University |
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Principal Investigator |
Aoki Yuichi 東北大学, 東北メディカル・メガバンク機構, 助教 (40747599)
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| Project Period (FY) |
2015-04-01 – 2018-03-31
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| Project Status |
Completed (Fiscal Year 2017)
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| Budget Amount *help |
¥4,030,000 (Direct Cost: ¥3,100,000、Indirect Cost: ¥930,000)
Fiscal Year 2016: ¥650,000 (Direct Cost: ¥500,000、Indirect Cost: ¥150,000)
Fiscal Year 2015: ¥3,380,000 (Direct Cost: ¥2,600,000、Indirect Cost: ¥780,000)
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| Keywords | 遺伝子発現制御 / 遺伝子共発現 / 遺伝子共発現ネットワーク / ヌクレオソーム / シロイヌナズナ / 共発現データベース / MNase-Seq / RNA-Seq |
|---|
| Outline of Final Research Achievements |
In this study, we investigated genomic features associated with the functional relationships of Arabidopsis thaliana genes by using gene coexpression data in ATTED-II. Gene coexpression, a similarity of gene expression profiles, provides a genome-wide approximation of functional gene relationships at transcriptional regulation level. In comparative analysis between the similarity of genomic features and the strength of gene coexpression, we found that genes exhibiting similar average expression level tend to be coexpressed strongly, and the average expression level can be well explained by nucleosome positioning around the transcription start site. We also revealed that the evolutionary oldness of protein coding regions strongly related to both nucleosome positioning and gene coexpression. We anticipate our results to be a starting point for understanding the mechanisms underlying cellular systems evolution, and for developing a genome-based gene function prediction method.
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Report
(4 results)
Research Products
(31 results)
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[Journal Article] Root-knot and cyst nematodes activate procambium-associated genes in Arabidopsis roots2017
Author(s)
Yasuka L Yamaguchi, Reira Suzuki, Javier Cabrera, Satoru Nakagami, Tomomi Sagara, Chika Ejima, Ryosuke Sano, Yuichi Aoki, Rocio Olmo Lopez, Tetsuya Kurata, Takeshi Obayashi, Taku Demura, Takashi Ishida, Carolina Escobar, Shinichiro Sawa
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Journal Title
Frontiers in Plant Science
Volume: 8
Pages: 1195-1195
DOI
Related Report
Peer Reviewed / Open Access / Int'l Joint Research
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