Deciphering the regulatory logic for cell type-specific transcription based on intranuclear dynamics of transcription factors and cis-regulatory DNAs
| Project/Area Number |
22310120
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| Research Category |
Grant-in-Aid for Scientific Research (B)
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| Allocation Type | Single-year Grants |
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| Section | 一般 |
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| Research Field |
Genome biology
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| Research Institution | Konan University |
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Principal Investigator |
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| Co-Investigator(Kenkyū-buntansha) |
NAKAI Kenta 東京大学, 医科学研究所, 教授 (60217643)
SUZUKI Yutaka 東京大学, 大学院新領域創成科学研究科, 教授 (40323646)
SHOGUCHI Eiichi 沖縄科学技術大学院大学, マリンゲノミックスユニット, ユニットリーダー (90378563)
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| Project Period (FY) |
2010-04-01 – 2013-03-31
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| Project Status |
Completed (Fiscal Year 2013)
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| Budget Amount *help |
¥20,020,000 (Direct Cost: ¥15,400,000、Indirect Cost: ¥4,620,000)
Fiscal Year 2012: ¥6,760,000 (Direct Cost: ¥5,200,000、Indirect Cost: ¥1,560,000)
Fiscal Year 2011: ¥6,760,000 (Direct Cost: ¥5,200,000、Indirect Cost: ¥1,560,000)
Fiscal Year 2010: ¥6,500,000 (Direct Cost: ¥5,000,000、Indirect Cost: ¥1,500,000)
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| Keywords | 遺伝子 / ゲノム / 転写調節 / 発生・分化 / ホヤ / メダカ |
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| Research Abstract |
To obtain a genome wide landscape of transcriptional activity in the simple chordate model Ciona intestinalis, we have conducted a large scale sequencing of 5' ends of their mRNAs by massively parallel sequencing using the Illumina Genome Analyzer. The obtained 5'-end sequences were then used to map transcription start sites (TSSs) on the genome. The data were also used to map 5'-ends of trans-spliced transcripts. These data have been used to determine the TSS of a trans-spliced gene and for genome-wide profiling of C. intestinalis promoters. Based on these data, we further analyzed cell type-specific gene regulatory mechanisms in vivo by examining function of transcription factors, cis-regulatory DNAs, and chromatin level interactions. Using medaka as a vertebrate model, we have revealed that physical interactions between upstream cis-regulatory regions of two adjacent genes are a widely conserved mechanism for spatially regulated transcription during embryogenesis.
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Report
(4 results)
Research Products
(118 results)
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[Journal Article] Characterization of the compact bicistronic microRNA precursor, miR-1/miR-133, expressed specifically in Ciona muscle tissues.2013
Author(s)
Rie Kusakabe, Saori Tani, Koki Nishitsuji, Miyuki Shindo, Kohji Okamura, Yuki Miyamoto, Kenta Nakai, Yutaka Suzuki, Takehiro G Kusakabe, Kunio Inoue
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Journal Title
Gene Expression Patterns
Volume: 13
Issue: 1-2
Pages: 43-50
DOI
Related Report
Peer Reviewed
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[Journal Article] A conserved non-reproductive GnRH system in chordates2012
Author(s)
Takehiro G. Kusakabe, Tsubasa Sakai, Masato Aoyama, Yuka Kitajima, Yuki Miyamoto, Toru Takigawa, Yutaka Daido, Kentaro Fujiwara, Yasuko Terashima, Yoko Sugiuchi, Giorgio Matassi, Hitoshi Yagisawa, Min Kyun Park, Honoo Satake, and Motoyuki Tsuda
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Journal Title
PLoS One
Volume: 7 (7)
Issue: 7
Pages: e41955-e41955
DOI
Related Report
Peer Reviewed
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[Journal Article] Ependymal cells of chordate larvae are stem-like cells from the adult nervous system2011
Author(s)
Horie, T., Shinki, R., Ogura, Y., Kusakabe, T.G., Satoh, N., and Sasakura, Y.
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Journal Title
Nature
Volume: 469
Issue: 7331
Pages: 525-528
DOI
Related Report
Peer Reviewed
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[Journal Article] The ANISEED database : digital representation, formalization, and elucidation of a chordate developmental program2010
Author(s)
O. Tassy, D. Dauga, F. Daian, D. Sobral, F. Robin, P. Khoueiry, D. Salgado, V Fox, D. Caillol, R. Schiappa, B. Laporte, A. Rios, G. Luxardi, T. Kusakabe, J. S. Joly, S. Darras, L. Christiaen, M. Contensin, H. Auger, C. Lamy, C. Hudson, U. Rothbacher, M. J. Gilchrist, K. W. Makabe, K. Hotta, S. Fujiwara, N. Satoh, Y Satou and P Lemaire
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Journal Title
Genome Res
Volume: 20
Issue: 10
Pages: 1459-1468
DOI
Related Report
Peer Reviewed
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