System-level Understanding of Intercellular Interactions

• Project/Area Number: 18016031
• Research Category: Grant-in-Aid for Scientific Research on Priority Areas
• Allocation Type: Single-year Grants
• Review Section: Biological Sciences
• Research Institution: The Institute of Physical and Chemical Research
• Principal Investigator: UEDA Hiroki (UEDA,) The Institute of Physical and Chemical Research, システムバイオロジー研究チーム, チームリーダー (20373277)
• Co-Investigator(Kenkyū-buntansha): UKAI Hideki 独立行政法人理化学研究所, システムバイオロジー研究チーム, 研究員 (70391878)
• Project Period (FY): 2006 – 2009
• Project Status: Completed (Fiscal Year 2009)
• Budget Amount: ¥64,200,000 (Direct Cost: ¥64,200,000); Fiscal Year 2009: ¥13,400,000 (Direct Cost: ¥13,400,000); Fiscal Year 2008: ¥13,300,000 (Direct Cost: ¥13,300,000); Fiscal Year 2007: ¥13,200,000 (Direct Cost: ¥13,200,000); Fiscal Year 2006: ¥24,300,000 (Direct Cost: ¥24,300,000)
• Keywords: システムバイオロジー / 再構成 / 体内時計 / 細胞間情報伝達 / 一細胞イメージング / シンギュラリティー / 光制御 / 位相制御 / 哺乳類 / 細胞間相互作用 / 転写制御 / 位相 / シンギュラリティー現象 / 光による定量的な制御 / メラノプシン / 脱同調 / バイオイメージング / バイオインフォマティクス / 理論生物学

Research Abstract

Central clock (the suprachiasmatic nucleus ; SCN) of mammal produces robust oscillation even in the presence of internal noise without referring to external time cues. Ueda et al proposed stochastic model of intercellular coupling mechanism, and theoretically indicated that the robustness of central clock is caused by intercellular interaction of clock cells (J.Theor.Biol.(2002) 216, 501-512). In this project, we tried to physically simulate the model by synthesis of intercellular interaction mechanism in peripheral clock cells in order to proof the model.

Research Products

• [Journal Article] Proof-by-Synthesis of the Transcriptional Logic of Mammalian Circadian Clocks (2008)
  • Author(s): Ukai-Tadenuma, M., Kasukawa, T., Ueda, H.R.
  • Journal Title: Nature Cell Biology 10 Pages: 1154-1163
  • Peer Reviewed
• [Journal Article] Proof-by-Synthesis of the Transcriptional Logic of Mammalian Circadian Clocks (2008)
  • Author(s): Ukai-Tadenuma, M., Kasukawa, T. and Ueda, H.R
  • Journal Title: Nature Cell Biology 10 Pages: 1154-1163
  • Peer Reviewed
• [Journal Article] Proof-by- Synthesis of the Transcriptional Logic of Mammalian Circadian Clocks (2008)
  • Author(s): Maki Ukai-Tadenuma, et al.
  • Journal Title: Nature Cell Biology 10 Pages: 1154-1163
  • Peer Reviewed
• [Journal Article] Melanopsin-dependent photo-perturbation reveals desynchronization underlying the singularity of mammalian circadian clocks (2007)
  • Author(s): Ukai, H., Kobayashi, T.J., Nagano, M., Masumoto, K., Sujino, M., Kondo, T., Yagita K., Shigeyoshi, Y., Ueda, H.R.
  • Journal Title: Nature Cell Biology 9 Pages: 1327-1334
  • Peer Reviewed
• [Journal Article] A functional genomics strategy reveals clockwork orange as a transcriptional regulator in the Drosophila circadian clock. (2007)
  • Author(s): Matsumoto, A., Ukai-Tadenuma, M., Yamada, R.G., Houl, J., Uno, D.K., Kasukawa, T., Dauwalder, B., Itoh, T., Takahashi, K., Ueda, R., Hardin, P., Tanimura, T, * Ueda, H.R.
  • Journal Title: Genes & Development 21(13) Pages: 1687-700
  • Peer Reviewed
• [Journal Article] Melanopsin-dependent photo-perturbation reveals desynchronization underlying the singularity of mammalian circadian clocks (2007)
  • Author(s): Ukai, H., Kobayashi, T.J., Nagano, M., Masumoto, K., Sujino, M., Kondo, T., Yagita K., Shigeyoshi, Y. and Ueda, H.R.
  • Journal Title: Nature Cell Biology 9 Pages: 1327-1334
  • Peer Reviewed
• [Journal Article] Melanopsin-dependent photo-perturbation reveals desynchronization underlying the singularity of mammalian circadian clocks (2007)
  • Author(s): Hideki Ukai, et. al.
  • Journal Title: Nature Cell Biology 9 Pages: 1327-1334
  • Peer Reviewed
• [Journal Article] Feedback repression is required for mammalian circadian clock function (2006)
  • Author(s): Sato, T.K., Yamada, R.G., Ukai, H., Baggs, J.E., Miraglia, L.J., Kobayashi, T.J., Welsh, D.K., Kay, S.A., Ueda, H.R. *, Hogenesch, J.B.
  • Journal Title: Nature Genetics 38 Pages: 312-319
  • Peer Reviewed
• [Journal Article] Feedback repression is required for mammalian circadian clock function (2006)
  • Author(s): Sato, T.K., Yamada, R.G., Ukai, H., Baggs, J.E., Miraglia, L.J., Kobayashi, T.J., Welsh, D.K., Kay, S.A., Ueda, H.R. and Hogenesch, J.B
  • Journal Title: Nature Genetics 38 Pages: 312-319
  • Peer Reviewed
• [Journal Article] System-level identification of transcriptional circuits underlying mammalian circadian clocks. (2005)
  • Author(s): Ueda, H.R., Hayashi, S., Chen, W.B., Sano, M., Machida, M., Shigeyoshi, Y., Iino, M., Hashimoto, S.
  • Journal Title: Nature Genetics 37(2) Pages: 187-192
  • Peer Reviewed
• [Presentation] システムバイオロジーとは? -ウエット・ドライ融合型研究の実際- (2010)
  • Author(s): 鵜飼英樹
  • Organizer: 眼分子生物学研究会
  • Place of Presentation: 不死王閣(大阪)
  • Year and Date: 2010-02-13
• [Presentation] Melanopsin-dependent photo-perturbation reveals desynchronization underlying the singularity of mammalian circadian clocks (2009)
  • Author(s): 鵜飼英樹
  • Organizer: 第32回日本分子生物学会年会
  • Place of Presentation: パシフィコ横浜
  • Year and Date: 2009-12-11
• [Presentation] 中枢時計を創る (2009)
  • Author(s): 鵜飼英樹
  • Organizer: 細胞を創る研究会
  • Place of Presentation: 東京大学医学部鉄門記念講堂(東京)
  • Year and Date: 2009-10-02
• [Presentation] 光と体内時計 (2009)
  • Author(s): Ueda, H. R
  • Organizer: 太陽紫外線防御研究会
  • Place of Presentation: メルパルク京都(京都)
  • Year and Date: 2009-07-27
• [Presentation] 融合型研究による慨日リズムSingularity現象の動作機構解明 (2009)
  • Author(s): 鵜飼英樹
  • Organizer: 第一回定量生物学の会年会
  • Place of Presentation: 東京大学生産技術研究所(東京)
  • Year and Date: 2009-01-11
• [Presentation] 融合型研究による慨日リズムSingularity現象の動作機構解明 (2009)
  • Author(s): 鵜飼 英樹
  • Organizer: 第1回定量生物学の会年会
  • Place of Presentation: 東京大学生産技術研究所
  • Year and Date: 2009-01-11
• [Presentation] 生物発光で紐解く哺乳類の概日時計の分子・細胞ネットワークMOLECULAR AND CELLULAR NETWORKS OF MAMMALIAN CIRCADIAN CLOCK REVEALED BY BIOLUMINESCENCE. MOLECULAR AND CELLULAR NETWORKS OF MAMMALIAN CIRCADIAN CLOCK REVEALED BY BIOLUMINESCENCE. (2008)
  • Author(s): Ueda, H. R
  • Organizer: 第46回日本生物物理学会年会
  • Place of Presentation: 福岡国際会議場(福岡)
  • Year and Date: 2008-12-03
• [Presentation] 生物発光で紐解く哺乳類の概日時計の分子・細胞ネットワーク (2008)
  • Author(s): 上田 泰己
  • Organizer: 第46回日本生物物理学会年会
  • Place of Presentation: 福岡国際会議場
  • Year and Date: 2008-12-03
• [Presentation] 概日リズムモニターの現状とリズム測定におけるニーズ (2008)
  • Author(s): 鵜飼英樹
  • Organizer: 先進ものづくり技術によるアナライザーキーコンポーネント開発基盤の構築状況
  • Place of Presentation: 理化学研究所和光本所(埼玉)
  • Year and Date: 2008-08-07
• [Presentation] Systems Biology of Mammalian Circadian Clocks (2008)
  • Author(s): Ueda, H. R
  • Organizer: 上原記念生命科学財団国際シンポジウム"システムズバイオロジーによる、複雑な生命システム理解への挑戦
  • Place of Presentation: ハイアットリージェンシー東京(東京)
  • Year and Date: 2008-06-30
• [Presentation] Systems Biology of Mammalian Circadian Clocks (2008)
  • Author(s): 上田 泰己
  • Organizer: 上原記念生命科学財団国際シンポジウム「システムズバイオロジーによる、複雑な生命システム理解への挑戦」
  • Place of Presentation: ハイアットリージェンシー東京
  • Year and Date: 2008-06-30
• [Presentation] SYSTEMS BIOLOGY OF MAMMALIAN CIRCADIAN CLOCKS (2008)
  • Author(s): Ueda, H. R
  • Organizer: 20th Anniversary Meeting Society for Research on Biological Rhythms
  • Place of Presentation: Florida, USA
  • Year and Date: 2008-05-11
• [Presentation] Systems Biology of Mammalian Circadian Clocks (2008)
  • Author(s): 上田 泰己
  • Organizer: SRBR
  • Place of Presentation: Sandestin Golf and Beach Resort, Destin, Florida, USA
  • Year and Date: 2008-05-11
• [Presentation] Systems Biology of Mammalian Circadian Clocks (2008)
  • Author(s): 上田 泰己
  • Organizer: ESF-UB conference
  • Place of Presentation: Sant Feliu de Guixols, Spain
  • Year and Date: 2008-04-14
• [Presentation] SYSTEMS BIOLOGY OF MAMMALIAN CIRCADIAN CLOCKS" ESF-UB conference in Biomedicine (2008)
  • Author(s): Ueda, H. R
  • Organizer: SYSTEMS BIOLOGY
  • Place of Presentation: Sant Feliu de Guixols, Spain
  • Year and Date: 2008-04-12
• [Presentation] 再構成による哺乳類概日時計の転写ネットワークの理解 (2008)
  • Author(s): 鵜飼-蓼沼 磨貴
  • Organizer: 細胞を創る会議1.0
  • Place of Presentation: 大阪大学
• [Presentation] 哺乳類体内時計の制御と設計 (2007)
  • Author(s): 上田泰己
  • Organizer: 第30回日本分子生物学会年会・第80回日本生化学会大会合同大会
  • Place of Presentation: パシフィコ横浜(横浜)
  • Year and Date: 2007-12-11
• [Presentation] 哺乳類体内時計の制御と設計 (2007)
  • Author(s): 上田 泰己
  • Organizer: 第30回日本分子生物学会年会・第80回日本生化学会大会合同大会(BMB2007)
  • Place of Presentation: パシフィコ横浜
  • Year and Date: 2007-12-11
• [Presentation] 動的で複雑な生命システム理解のための機能ゲノミクス (2007)
  • Author(s): 上田泰己
  • Organizer: 第19回分子糖尿病学シンポジウム
  • Place of Presentation: 神戸国際会議場(神戸)
  • Year and Date: 2007-12-08
• [Presentation] 動的で複雑な生命システム理解のための機能ゲノミクス (2007)
  • Author(s): 上田 泰己
  • Organizer: 第19回分子糖尿病学シンポジウム
  • Place of Presentation: 神戸国際会議場
  • Year and Date: 2007-12-08
• [Presentation] Control and Design of Mammalian Circadian Clocks (2007)
  • Author(s): Ueda, H. R
  • Organizer: Pasteur CDB jont meeting
  • Place of Presentation: Paris, France
  • Year and Date: 2007-11-28
• [Presentation] Control and Design of Mammalian Circadian Clocks (2007)
  • Author(s): Hiroki R. Ueda
  • Organizer: Pasteur CDB jont meeting
  • Place of Presentation: Pasteur, France
  • Year and Date: 2007-11-28
• [Presentation] 中枢時計を創る (2007)
  • Author(s): 鵜飼英樹
  • Organizer: 細胞を創る」研究会0. 0
  • Place of Presentation: 日本科学未来館(東京)
  • Year and Date: 2007-11-25
• [Presentation] Desynchronization Underlying the Singularity of Mammalian Circadian Clocks (2007)
  • Author(s): 鵜飼英樹
  • Organizer: 第14回日本時間生物学会学術大会
  • Place of Presentation: 京王プラザホテル(東京)
  • Year and Date: 2007-11-07
• [Presentation] Desynchronization Underlying the Singularity of Mammalian Circadian Clocks (2007)
  • Author(s): 鵜飼 英樹
  • Organizer: 第14回日本時間生物学会学術大会
  • Place of Presentation: 京王プラザホテル,東京
  • Year and Date: 2007-11-07
• [Presentation] Identify, Control and Design Cellular Clocks (2007)
  • Author(s): Ueda, H. R
  • Organizer: ndo-JSPS-CDB Joint Meeting
  • Place of Presentation: 理化学研究所発生・再生科学総合研究センター(神戸)
  • Year and Date: 2007-10-23
• [Presentation] Identify, Control and Design Cellular Clocks (2007)
  • Author(s): Hiroki R. Ueda
  • Organizer: Indo-JSPS-CDB Joint Meething
  • Place of Presentation: CDB, RIKEN, Japan
  • Year and Date: 2007-10-23
• [Presentation] CONTROL AND DESIGN OF MAMMALIAN CLOCKS (2007)
  • Author(s): Hiroki R
  • Organizer: 9th Functional Genomics: Synthetic Biology
  • Place of Presentation: Goteborg, Sweden
  • Year and Date: 2007-08-27
• [Presentation] The Underlying Mechanism for Singularity Behavior of Circadian Clock (2007)
  • Author(s): Ueda, H. R
  • Organizer: KITP Program: Biological Switches and Clocks
  • Place of Presentation: Santa Barbara, USA
  • Year and Date: 2007-07-10
• [Presentation] The Underlying Mechanism for Singularity Behavior of Circadian Clock (2007)
  • Author(s): Hiroki R. Ueda
  • Organizer: KITP Program: Biological Switches and Clocks
  • Place of Presentation: KITP, USA
  • Year and Date: 2007-07-10
• [Presentation] CONTROL AND DESIGN OF MAMMALIAN CLOCKS" Synthetic Biology 3. 0 (2007)
  • Author(s): Ueda, H. R
  • Organizer: Conference
  • Place of Presentation: Zurich, Switzerland
  • Year and Date: 2007-06-26
• [Presentation] CONTROL AND DESIGN OF MAMMALIAN CLOCKS (2007)
  • Author(s): Hiroki R. Ueda
  • Organizer: Synthetic Biology 3.0 Conference in Zurich
  • Place of Presentation: ETH Zurich, Switzerland
  • Year and Date: 2007-06-26
• [Presentation] CONTROL AND DESIGN OF MAMMALIAN CLOCKS (2007)
  • Author(s): Hiroki R. Ueda
  • Organizer: Cold Springg Harbor Laboratory 72nd Symposium: Clocks & Rhythms meeting
  • Place of Presentation: Cold Spring Harbor, USA
  • Year and Date: 2007-06-04
• [Presentation] CONTROL AND DESIGN OF MAMMALIAN CLOCKS (2007)
  • Author(s): Ueda, H. R
  • Organizer: Cold Spring Harbor Laboratory 72nd Symposium: Clocks & Rhythms meeting
  • Place of Presentation: New York, USA
  • Year and Date: 2007-05-30
• [Presentation] 細胞集団の振る舞いとして理解する概日時計 (2007)
  • Author(s): 上田泰己
  • Organizer: 第40回日本発生生物学会・第59回日本細胞生物学会合同大会
  • Place of Presentation: 福岡国際会議場(福岡)
  • Year and Date: 2007-05-29
• [Presentation] 細胞集団の振る舞いとして理解する概日時計 (2007)
  • Author(s): 鵜飼英樹
  • Organizer: 第59回細胞生物学会・第40回発生生物学会合同大会
  • Place of Presentation: 福岡国際会議場(福岡)
  • Year and Date: 2007-05-29
• [Presentation] 細胞集団の振る舞いとして理解する概日時計 (2007)
  • Author(s): 上田 泰己
  • Organizer: 第40回日本発生生物学会・第59回日本細胞生物学会 合同大会
  • Place of Presentation: 福岡国際会議場
  • Year and Date: 2007-05-29
• [Presentation] 細胞集団の振る舞いとして理解する概日時計 (2007)
  • Author(s): 鵜飼 英樹
  • Organizer: 第59回細胞生物学会・第40回発生生物学会合同大会「ミニシンポジウム 生命現象に見られるゆらぎ・振動・波」
  • Place of Presentation: 福岡国際会議場
  • Year and Date: 2007-05-29
• [Presentation] 哺乳類体内時計の制御と設計 (2007)
  • Author(s): 上田泰己
  • Organizer: 第30回日本分子生物学会年会・第80回日本生化学会大会合同大会(BMB2007)
  • Place of Presentation: 横浜
• [Presentation] 一細胞発光測定で見えてきたもの～概日時計システムの例～ (2006)
  • Organizer: 分子細胞イメージングと疾患・創薬研究セミナーin神戸
  • Place of Presentation: ニチイ学館神戸ポートアイランドセンター(神戸)
  • Year and Date: 2006-10-20
• [Presentation] Analysis and Synthesis of Circadian Clock (2006)
  • Author(s): Ueda, H. R
  • Organizer: International Conference on Systems Biology(ICSB)
  • Place of Presentation: Yokohama, Japan
  • Year and Date: 2006-10-09
• [Presentation] Circadian rhythm (2006)
  • Author(s): Ueda, H. R
  • Organizer: Asia/Pacific Summer School on Computational Biology
  • Place of Presentation: Pohang, Korea
  • Year and Date: 2006-07-08
• [Presentation] From Analysis to Synthesis of Mammalian Circadian Clocks (2006)
  • Author(s): Ueda, H. R
  • Organizer: 10th Biennial Meeting
  • Place of Presentation: Florida, USA
  • Year and Date: 2006-05-22
• [Presentation] 細胞集団の振る舞いとして理解する概日時計 (2006)
  • Author(s): 上田泰己
  • Organizer: 第40回日本発生生物学会・第59回日本細胞生物学会 合同大会
  • Place of Presentation: 福岡
• [Presentation] Analysis and synthesis of circadian clocks (2006)
  • Author(s): 上田泰己
  • Organizer: 第13回日本時間生物学会学術大会
  • Place of Presentation: 東京
• [Book] SEASONAL AFFECTIVE DISORDER (2010)
  • Author(s): Hideki Ukai, Hiroki R.Ueda
  • Total Pages: 352
  • Publisher: OXFORD UNIVERSITY PRESS
• [Book] 生体の科学 (2008)
  • Author(s): Ukai, H., Kobayashi, TJ., Ueda, HR.
  • Total Pages: 2
  • Publisher: 医学書院
• [Book] バイオサイエンスとインダストリー (2008)
  • Author(s): Ukai, H., Kobayashi, TJ., Ueda, HR.
  • Total Pages: 7
  • Publisher: (財)バイオインダストリー協会
• [Book] 体内時計のシンギュラリティ現象の解明(Vol.14, No.1) (2008)
  • Author(s): 上田泰己
• [Book] 時間生物学 (2008)
  • Author(s): 上田 泰己
  • Total Pages: 7
  • Publisher: 時間生物学会
• [Book] 生体の科学 (2008)
  • Author(s): 鵜飼 英樹, 他
  • Total Pages: 2
  • Publisher: 医学書院
• [Book] バイオサイエンスとインダストリー (2008)
  • Author(s): 鵜飼 英樹, 他
  • Total Pages: 7
  • Publisher: バイオインダストリー協会
• [Book]
  • Author(s): 上田泰己
  • Publisher: 時間生物学会