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Computational analysis for the control regions of non-ccding genes on genomic sequences of various organisms

Research Project

Project/Area Number 25330350
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Life / Health / Medical informatics
Research InstitutionTokyo University of Science

Principal Investigator

Miyazaki Satoru  東京理科大学, 薬学部, 教授 (30290894)

Project Period (FY) 2013-04-01 – 2016-03-31
Project Status Completed (Fiscal Year 2015)
Budget Amount *help
¥2,470,000 (Direct Cost: ¥1,900,000、Indirect Cost: ¥570,000)
Fiscal Year 2015: ¥650,000 (Direct Cost: ¥500,000、Indirect Cost: ¥150,000)
Fiscal Year 2014: ¥650,000 (Direct Cost: ¥500,000、Indirect Cost: ¥150,000)
Fiscal Year 2013: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
KeywordsノンコーディングRNA / イントロン内ノンコーディングRNA
Outline of Final Research Achievements

The integration genomic databases available on INTRENET, we reconstructed our original database in which include the location of non-coding genes and control regions of the gene expression on genomic sequence, annotations and DNA sequence data. Bioinformatics approach with our original database allowed us to analyze some hidden rules on primary structure of genome sequences. In our approach suggested the following results; (1) Only 30% of cis-regulatory elements-like sequence in upper regions of coding genes are positive ones, (2)Proteins having intronic non-coding genes are high possibilities regarding with functions of the brain and neurons, (3)Primary structure of control regions of genome sequences are different between non-coding gene’s and coding gene’s.

Report

(4 results)
  • 2015 Annual Research Report   Final Research Report ( PDF )
  • 2014 Research-status Report
  • 2013 Research-status Report
  • Research Products

    (13 results)

All 2015 2014 2013

All Journal Article (5 results) (of which Peer Reviewed: 4 results,  Open Access: 3 results) Presentation (8 results) (of which Int'l Joint Research: 1 results)

  • [Journal Article] Protein functional site prediction using a conservative grade and a proximate grade.2015

    • Author(s)
      Yosuke Kondo, Satoru Miyazaki
    • Journal Title

      Journal of Data Mining in Genomics & Proteomic

      Volume: 6 Pages: 175-175

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] MeSH ORA framework: R/Bioconductorpackages to support MeSH over-representation analysis2015

    • Author(s)
      Koki Tsuyuzaki, Gota Morota, Manabu Ishii, Takeru Nakazato, Satoru Miyazaki and Itoshi Nikaido
    • Journal Title

      BMC BIOINFORMATICS

      Volume: - Issue: 1

    • DOI

      10.1186/s12859-015-0453-z

    • Related Report
      2015 Annual Research Report 2014 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Genome-wide analysis of long noncoding RNA turnover2015

    • Author(s)
      Hidenori Tani, Naoto Imamachi, Rena Mizutani, Katsutoshi Imamura, Yoendae Kwon, Satoru Miyazaki, Sho Maekawa, Yutaka Suzuki, Nobuyoshi Akimitsu
    • Journal Title

      Methods in Molecular Biology

      Volume: 1262 Pages: 305-20

    • DOI

      10.1007/978-1-4939-2253-6_19

    • ISBN
      9781493922529, 9781493922536
    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Implication of bidirectional promoters containing duplicated GGAA motifs of mitochondrial function-associated genes2013

    • Author(s)
      F. Uchiumi, M. Fujikawa, S. Miyazaki, S. Tanuma
    • Journal Title

      AIMS Mol. Sci

      Volume: 1 Issue: 1 Pages: 1-26

    • DOI

      10.3934/molsci.2013.1.1

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] 情報科学的手法によるnon-coding RNAの遺伝的発現制御の解析2013

    • Author(s)
      林知里、權娟大、宮崎智
    • Journal Title

      情報処理学会研究報告バイオ情報学

      Volume: 2013-BIO-34 Pages: 1-6

    • Related Report
      2013 Research-status Report
  • [Presentation] ヒトとマウスにおける転写制御情報を用いたp38qNARK基質のクラスター分析2015

    • Author(s)
      阿子島圭、宮崎智
    • Organizer
      第38回日本分子生物学会年会・第88回日本生化学会合同大会
    • Place of Presentation
      神戸ポートアイランド(兵庫県)
    • Year and Date
      2015-12-01
    • Related Report
      2015 Annual Research Report
  • [Presentation] 文献注釈情報MeSHを利用した網羅的な遺伝子の機能アノテーションパッケージ2015

    • Author(s)
      露崎弘毅、宮崎智
    • Organizer
      第38回 日本分子生物学会年会・第88回 日本生化学大会 合同大会
    • Place of Presentation
      神戸ポートアイランド(兵庫県)
    • Year and Date
      2015-12-01
    • Related Report
      2015 Annual Research Report
  • [Presentation] Functional site prediction of translation elongation factor 1A2015

    • Author(s)
      Yosuke Kondo, Satoru Miyazaki
    • Organizer
      Quantum Bio-Informatics Work Shop
    • Place of Presentation
      東京理科大学野田キャンパス(千葉県)
    • Year and Date
      2015-10-19
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 保存度と近接度を用いたタンパク質機能 > 部位予測2015

    • Author(s)
      近藤洋介、宮崎智
    • Organizer
      情報処理学会
    • Place of Presentation
      沖縄科学技術大学院大学 (沖縄)
    • Year and Date
      2015-06-25
    • Related Report
      2015 Annual Research Report
  • [Presentation] 共進化解析を利用した遺伝子間相互作用の予測2014

    • Author(s)
      西川大貴、權娟大、宮崎智
    • Organizer
      第37回 日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜
    • Year and Date
      2014-11-25 – 2014-11-27
    • Related Report
      2014 Research-status Report
  • [Presentation] 複数の構造を用いた多重配列アライメント上のサイトの評価2014

    • Author(s)
      近藤洋介、權娟大、深井文雄、宮崎智
    • Organizer
      第三回生命医薬情報学連合大会
    • Place of Presentation
      宮城県仙台市 仙台国際センター
    • Year and Date
      2014-10-02 – 2014-10-04
    • Related Report
      2014 Research-status Report
  • [Presentation] micro-RNA geneとprotein-coding geneのプロモーター領域の比較2014

    • Author(s)
      今井はる奈、權娟大、宮崎智
    • Organizer
      日本薬学会第134年会
    • Place of Presentation
      熊本
    • Related Report
      2013 Research-status Report
  • [Presentation] バイオインフォマティクス手法によるシスエレメント配列一次構造の網羅的解析2014

    • Author(s)
      加納知佳、權娟大、宮崎智
    • Organizer
      日本薬学会第134年会
    • Place of Presentation
      熊本
    • Related Report
      2013 Research-status Report

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Published: 2014-07-25   Modified: 2019-07-29  

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