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2006 Fiscal Year Annual Research Report

ゲノム機能解析とインフォマティクスを駆使した生命システムの解明

Research Project

Project/Area Number 16063101
Research InstitutionThe University of Tokyo

Principal Investigator

高木 利久  東京大学, 大学院新領域創成科学研究科, 教授 (30110836)

Co-Investigator(Kenkyū-buntansha) 小笠原 直毅  奈良先端科学技術大学院大学, 情報科学研究科, 教授 (10110553)
藤山 秋佐夫  国立情報学研究所, 情報学プリンシプル研究系, 教授 (60142311)
辻 省次  東京大学, 大学院医学系研究科, 教授 (70150612)
小原 雄治  国立遺伝学研究所, 生物遺伝資源情報総合センター, 教授 (70135292)
菅野 純夫  東京大学, 大学院新領域創成科学研究科, 教授 (60162848)
Keywords生命システム / ゲノム機能解析 / 生命シミュレーション / バイオインフォマティクス / 遺伝子ネットワーク / 表現型解析 / ゲノムオントロジー / システム生物学
Research Abstract

本総括班は、「ゲノム機能解析とインフォマティクスを駆使した生命システムの解明」(略称:生命システム情報)を有機的かつ円滑に運営し、研究を効率良く進めるためのものである。また、この総括班は、「生命システム情報」だけでなく、「比較ゲノム」、「応用ゲノム」、「基盤ゲノム」を含む、ゲノム特定4領域全体の総括班としての機能も果たすように設計されている。そのため、ゲノム特定4領域の有機的、効率的運営のための活動もあわせて展開する。また、国内の関連プロジェクトやセンターとの連絡調整機能も果たす。
平成18年度に行ったおもな活動は以下の通りである。
・ゲノム特定4領域の計画研究(66課題)、公募研究(103課題)、支援班(5課題)の班員による合同班会議(平成18年9月20日〜22日、大阪)の開催
・ゲノム研究者と一般市民の交流イベント「ゲノムひろば」(平成18年11月4日〜5日東京、同年同月18日〜19日京都)の開催
・領域横断微生物研究会(平成18年11月20日〜22日、松島)の開催
・インフォマティクス研究者と医学研究者の交流会(平成18年11月24日〜25日、柏)の開催
・生命システム情報領域個別班会議(平成18年11月30日〜12月2日、奈良)の開催
・高校生をおもな対象とした、研究者と市民との交流会「ミニゲノムひろば」(平成18年12月10日、福岡)の開催
・成果公開シンポジウム(平成19年1月31日、東京)の開催
・ホームページの開設、運用、市民向け解説記事の充実
・ゲノム特定4領域の班員名簿および平成18年度研究成果報告書の作成
・ゲノム特定4領域で開発されたデータベースなどの成果公開用サーバの整備

  • Research Products

    (34 results)

All 2007 2006 Other

All Journal Article (34 results)

  • [Journal Article] Knowledge discovery based on an implicit and explicit conceptual network.2007

    • Author(s)
      Koike, A., (Takagi, T.)
    • Journal Title

      Journal of the American Society for Information Sciences 58(1)

      Pages: 51-65

  • [Journal Article] Biomedical knowledge navigation by literature clustering.2007

    • Author(s)
      Yamamoto, Y., (Takagi, T.)
    • Journal Title

      Journal of Biomedical Informatics 40(2)

      Pages: 114-130

  • [Journal Article] The ELT-2 GATA-Factor and the Global Regulation of Transcription in the C. elegans Intestine.2007

    • Author(s)
      J.D.McGhee., (Kohara, Y.)
    • Journal Title

      Developmental Biology 302

      Pages: 627-645

  • [Journal Article] Axial patterning in cephalochordates and the evolution of the organizer.2007

    • Author(s)
      Yu, J-K., (Kohara, Y.)
    • Journal Title

      Nature 445

      Pages: 613-617

  • [Journal Article] Gene organization of the liverwort Y chromosome reveals distinct sex chromosome evolution in a haploid system.2007

    • Author(s)
      Yamato, K., (Kohara, Y.)
    • Journal Title

      Proceedings of the National Academy of Sciences 104

      Pages: 6472-6477

  • [Journal Article] RUNX regulates stem cell proliferation and differentiation : Insights from studies of C. elegans.2007

    • Author(s)
      Kagoshima H., (Kohara, Y.)
    • Journal Title

      Journal of Cellular Biochemistry 100(5)

      Pages: 1119-1130

  • [Journal Article] SAGE analysis of early oogenesis in the silkworm, Bombyxmori.2007

    • Author(s)
      Funaguma S., (Sugano, S.)
    • Journal Title

      Insect Biochemistry and Molecular Biology 37(2)

      Pages: 147-154

  • [Journal Article] Comparasite : a database for comparative study of transcriptomes of parasites defined by full-length cDNAs.2007

    • Author(s)
      Watanabe J., (Sugano, S.)
    • Journal Title

      Nucleic Acids Research 35:D

      Pages: 431-438

  • [Journal Article] H-DBAS : Alternative splicing database of completely sequenced and manually annotated full-length cDNAs based on H-Invitational.2007

    • Author(s)
      Takeda, JI., (Sugano, S.)
    • Journal Title

      Nucleic Acids Research 35(1):D

      Pages: 104-109

  • [Journal Article] A synthetic protein approach toward accurate mass spectrometric quantification of component stoichiometry of multiprotein complexes.2007

    • Author(s)
      Kito, K., (Ito, T.)
    • Journal Title

      Journal of Proteome Research 6

      Pages: 792-800

  • [Journal Article] Methods for protein-protein interaction analysis. in Introduction to Systems Biology (Ed. Choi, S.).2007

    • Author(s)
      Kito, K., (Ito, T.)
    • Journal Title

      Humana Press

      Pages: 160-182

  • [Journal Article] MetaGene : prokaryotic gene finding from environmental genome shotgun sequences.2006

    • Author(s)
      Noguchi, H., (Takagi, T.)
    • Journal Title

      Nucleic Acids Research 34(19)

      Pages: 5623-5630

  • [Journal Article] Improving the performance of an SVM-based method for predicting protein-protein interactions.2006

    • Author(s)
      Dohkan, S., (Takagi, T.)
    • Journal Title

      In Silico Biology 6

      Pages: 0048

  • [Journal Article] Human chromosome 11 DNA sequence and analysis including novel gene identification.2006

    • Author(s)
      Taylor, T., (Fujiyama, A.)
    • Journal Title

      Nature 440

      Pages: 497-500

  • [Journal Article] Has the chimpanzee Y chromosome been sequenced?2006

    • Author(s)
      Kuroki, Y., (Fujiyama, A.)
    • Journal Title

      Nature Genetics 38

      Pages: 854-855

  • [Journal Article] Neuronal atrophy and synaptic alteration in a mouse model of dentatorubral-pallidoluysian atrophy.2006

    • Author(s)
      Sakai, K., (Tsuij, S.)
    • Journal Title

      Brain 129(PT 9)

      Pages: 2353-2362

  • [Journal Article] Functional dissection of YabA, a negative regulator of DNA replication initiation in Bacillus subtilis.2006

    • Author(s)
      Noirot-Gros, M., (Ogasawara, N.)
    • Journal Title

      Proceedings of the National Academy of Sciences 103

      Pages: 2368-2378

  • [Journal Article] The GTP-binding Protein YlqF Participates in the Late Step of 50 S Ribosomal Subunit Assembly in Bacillus subtilis.2006

    • Author(s)
      Matsuo, Y., (Ogasawara, N.)
    • Journal Title

      Journal of Biological Chemistry 281

      Pages: 8110-8117

  • [Journal Article] Bacillus subtilis EzrA and FtsL synergistically regulate FtsZ ring dynamics during cell division.2006

    • Author(s)
      Kawai, Y., (Ogasawara, N.)
    • Journal Title

      Microbiology 152

      Pages: 1129-1141

  • [Journal Article] A new FtsZ-interacting protein, YlmF, complements the activity of FtsA during progression of cell division in Bacillus subtilis.2006

    • Author(s)
      Ishikawa, S., (Ogasawara, N.)
    • Journal Title

      Molecular Microbiology 60

      Pages: 1364-1380

  • [Journal Article] Escherichia coli histone-like protein H-NS preferentially binds to horizontally acquired DNA in association with RNA polymerase.2006

    • Author(s)
      Oshima, T., (Ogasawara, N.)
    • Journal Title

      DNA Research 13

      Pages: 141-153

  • [Journal Article] Transcriptome analyses of human genes and applications for proteome analyses.2006

    • Author(s)
      Suzuki Y., (Sugano, S.)
    • Journal Title

      Current Protein and Peptide Science 7

      Pages: 147-163

  • [Journal Article] Relationship between retinoic acid receptor alpha gene expression and growth-inhibitory effect of all-trans retinoic acid on canine tumor cells.2006

    • Author(s)
      Miyajima N., (Sugano, S.)
    • Journal Title

      J Vet Intern Med 20

      Pages: 348-354

  • [Journal Article] Diverse DNA methylation statuses at alternative promoters of human genes in various tissues.2006

    • Author(s)
      Cheong, J., (Sugano, S.)
    • Journal Title

      DNA Research 13

      Pages: 155-167

  • [Journal Article] Large-scale identification and characterization of alternative splicing variants of human gene transcripts using 56,419 completely sequenced and manually annotated full-length cDNAs.2006

    • Author(s)
      Takeda, J., (Sugano, S.)
    • Journal Title

      Nucleic Acids Research 34

      Pages: 3917-3928

  • [Journal Article] Common inheritance of chromosome Ia associated with clonal expansion of Toxoplasma gondii.2006

    • Author(s)
      Khan, A., (Sugano, S.)
    • Journal Title

      Genome Research 16

      Pages: 1119-1125

  • [Journal Article] Activation of genes for growth factor and cytokine pathways late in chondrogenic differentiation of ATDC5 cells.2006

    • Author(s)
      Osawa, A., (Sugano, S.)
    • Journal Title

      Genomics 88(1)

      Pages: 52-64

  • [Journal Article] Deletion of angiotensin-converting enzyme 2 accelerates pressure overload-induced cardiac dysfunction by increasing local angiotensin II.2006

    • Author(s)
      Yamamoto, K., (Sugano, S.)
    • Journal Title

      Hypertension 47

      Pages: 718-726

  • [Journal Article] A large-scale full-length cDNA analysis to explore the budding yeast transcriptome.2006

    • Author(s)
      Miura, F., (Ito, T.)
    • Journal Title

      Proceedings of the National Academy of Sciences USA 103

      Pages: 17846-17851

  • [Journal Article] A novel Cdc42-interacting domain of the yeast polarity establishment protein Bem1 : implications for modulation of mating pheromone signaling.2006

    • Author(s)
      Yamaguchi, Y., (Ito, T.)
    • Journal Title

      Journal of Biological Chemistry 282

      Pages: 29-38

  • [Journal Article] Intrinsic promoter activities of primary DNA sequences in the human genome.

    • Author(s)
      Sakakibara, Y., (Takagi, T.)
    • Journal Title

      DNA Research (印刷中)

  • [Journal Article] Sox9b/sox9a2-EGFP transgenic medaka reveals the morphological reorganization of the gonads and a common precursor of both the female and male supporting cells.

    • Author(s)
      Nakamura, S., (Fujiyama, A.)
    • Journal Title

      Molecular Reproduction and Development (印刷中)

  • [Journal Article] Multiplex families with multiple system atrophy Arch.

    • Author(s)
      Hara, K., (Tsuij, S.)
    • Journal Title

      The Journal of Comparative Neurology (印刷中)

  • [Journal Article] Rate of Evolution in Brain-Expressed Genes in Humans and Other Primates.

    • Author(s)
      Wang, HY., (Sugano, S.)
    • Journal Title

      PLoS Biology (印刷中)

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Published: 2008-05-08   Modified: 2016-04-21  

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