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Studies on molecular mechanisms of sexual differenciation based on genome informatics approach

Planned Research

Project AreaMolecular mechanisms for establishment of sex differences.
Project/Area Number 22132005
Research Category

Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)

Allocation TypeSingle-year Grants
Review Section Biological Sciences
Research InstitutionKyushu University (2012-2014)
Kyoto University (2010-2011)

Principal Investigator

SUYAMA Mikita  九州大学, 生体防御医学研究所, 教授 (70452365)

Co-Investigator(Renkei-kenkyūsha) UCHIYAMA Ikuo  基礎生物学研究所, 理論生物学領域, 助教 (90243089)
Project Period (FY) 2010-04-01 – 2015-03-31
Project Status Completed (Fiscal Year 2014)
Budget Amount *help
¥68,640,000 (Direct Cost: ¥52,800,000、Indirect Cost: ¥15,840,000)
Fiscal Year 2014: ¥11,830,000 (Direct Cost: ¥9,100,000、Indirect Cost: ¥2,730,000)
Fiscal Year 2013: ¥12,350,000 (Direct Cost: ¥9,500,000、Indirect Cost: ¥2,850,000)
Fiscal Year 2012: ¥13,000,000 (Direct Cost: ¥10,000,000、Indirect Cost: ¥3,000,000)
Fiscal Year 2011: ¥12,870,000 (Direct Cost: ¥9,900,000、Indirect Cost: ¥2,970,000)
Fiscal Year 2010: ¥18,590,000 (Direct Cost: ¥14,300,000、Indirect Cost: ¥4,290,000)
Keywords比較ゲノム / バイオインフォマティクス / 遺伝子発現制御 / シス因子 / 遺伝子発現解析 / パスウェイ解析 / 発現制御ネットワーク / 転写調節 / エピゲノム / 次世代シークエンサー / トランスクリプトーム
Outline of Final Research Achievements

Comparative genomics and epigenomic analyses have rapidly been developed with the technological progress of next-generation sequencing platforms. These high-throughput genome analysis tools enabled us to conduct studies focusing on some of the fundamental biological processed such as sexial differenciation in molecular levels. The major objective of our research was to comprehensively reveal gene regulation associated with the process in genome-wide fashion. We reveals that there is sexially different expression of genes even in somatic cells. We also elucidated a molecular mechanisms behind decidualization of endometrial stromal cells by a genome-wide gene expression analysis combined with the data from epigenetic changes. During this project, we have also developed some computational methodologies useful for general analyses in the field of molecular biology and medicine.

Report

(6 results)
  • 2014 Annual Research Report   Final Research Report ( PDF )
  • 2013 Annual Research Report
  • 2012 Annual Research Report
  • 2011 Annual Research Report
  • 2010 Annual Research Report
  • Research Products

    (40 results)

All 2015 2014 2013 2012 2011 2010 Other

All Journal Article (9 results) (of which Peer Reviewed: 9 results,  Open Access: 3 results,  Acknowledgement Compliant: 3 results) Presentation (30 results) (of which Invited: 2 results) Remarks (1 results)

  • [Journal Article] GenomeCons: a web server for manipulating multiple genome sequence alignments and their consensus sequences2015

    • Author(s)
      Sato T, Suyama M
    • Journal Title

      Bioinformatics

      Volume: 31 Issue: 8 Pages: 1293-1295

    • DOI

      10.1093/bioinformatics/btu803

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Glycolytic gene as the targets of nuclear receptor Ad4BP/SF-12014

    • Author(s)
      Takashi Baba, Hiroyuki Otake, Tetsuya Sato, Kanako Miyabayashi, Yurina Shishido, Chia-Yih Wang, Yuichi Shima, Hiroshi Kimura, Mikako Yagi, Yasuhiro Ishihara, Shinjiro Hino, Hidesato Ogawa, Mitsuyoshi Nakao, Takeshi Yamazaki, Dongchon, Kang, Yasuyuki Ohkawa, Mikita Suyama, Bon-Chu Chung, Ken-ichirou Morohashi
    • Journal Title

      Nature Commun

      Volume: 5 Issue: 1 Pages: 3634-3634

    • DOI

      10.1038/ncomms4634

    • Related Report
      2014 Annual Research Report 2013 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Genome-wide analysis of histone modifications in human endometrial stromal cells2014

    • Author(s)
      Tamura I, Ohkawa Y, Sato T, Suyama M, Jozaki K, Okada M, Lee L, Maekawa R, Asada H, Sato S, Yamagata Y, Tamura H, Sugino N
    • Journal Title

      Mol. Endocrinol.

      Volume: 28 Issue: 10 Pages: 1656-1669

    • DOI

      10.1210/me.2014-1117

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Genome-wide profiling of 8-oxoguanine reveals its association with spatial positioning in nucleus2014

    • Author(s)
      Yoshihara M, Jiang L, Akatsuka S, Suyama M, Toyokuni S
    • Journal Title

      DNA Res.

      Volume: 21 Issue: 6 Pages: 603-612

    • DOI

      10.1093/dnares/dsu023

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Genome-wide analysis of DNA methylation dynamics during early human development2014

    • Author(s)
      Okae H, Chiba H, Hiura H, Hamada H, Sato A, Utsunomiya T, Kikuchi H, Yoshida H, Tanaka A, Suyama M, Arima T
    • Journal Title

      PLoS Genet.

      Volume: 10 Issue: 12 Pages: e1004868-e1004868

    • DOI

      10.1371/journal.pgen.1004868

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Mechanistic insights into mutually exclusive splicing in dynamin 12013

    • Author(s)
      Mikita Suyama
    • Journal Title

      Bioinformatics

      Volume: 29 Issue: 17 Pages: 2084-2087

    • DOI

      10.1093/bioinformatics/btt368

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] β-Catenin signaling regulates Foxa2 expression during endometrial hyperplasia formation2013

    • Author(s)
      Villacorte M, Suzuki K, Hirasawa A, Ohkawa Y, Suyama M, Maruyama T, Aoki D, Ogino Y, Miyagawa S, Terabayashi T, Tomooka Y, Nakagata N, Yamada G
    • Journal Title

      Oncogene

      Volume: 32 Issue: 29 Pages: 3477-3482

    • DOI

      10.1038/onc.2012.376

    • Related Report
      2013 Annual Research Report 2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] A polymorphism of the POLG2 gene is genetically associated with the invasiveness of urinary bladder cancer in Japanese males2011

    • Author(s)
      C. Ratanajaraya, H. Nishiyama, M. Takahashi, T. Kawaguchi, R. Saito, Y. Mikami, M. Suyama, M. Lathrop, R. Yamada, O. Ogawa, F. Matsuda.
    • Journal Title

      J. Hum. Genet

      Volume: 56 Issue: 8 Pages: 572-576

    • DOI

      10.1038/jhg.2011.60

    • NAID

      10030660404

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] A network of conserved co-occurring motifs for the regulation of alternative splicing2010

    • Author(s)
      Suyama M, Harrington ED, Vinokourova S, von Knebel Doeberitz M, Ohara O, Bork P
    • Journal Title

      Nucleic Acids Research

      Volume: 38 Pages: 7916-7926

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Presentation] セルトリ細胞における性染色体構成に依存した遺伝子発現制御機構の解明2014

    • Author(s)
      宍戸祐里菜、馬場崇、大竹博之、佐藤哲也、宮林香奈子、嶋雄一、大川恭行、須山幹太、諸橋憲一郎
    • Organizer
      第37回日本分子生物学会年会
    • Place of Presentation
      横浜
    • Year and Date
      2014-11-27
    • Related Report
      2014 Annual Research Report
  • [Presentation] ChIP-seqデータ解析で用いられるピーク検出プログラムのロバスト性評価法2014

    • Author(s)
      佐藤哲也、須山幹太
    • Organizer
      第37回日本分子生物学会年会
    • Place of Presentation
      横浜
    • Year and Date
      2014-11-27
    • Related Report
      2014 Annual Research Report
  • [Presentation] 8-オキソグアニンのゲノムワイドな分布の解析から明らかになったその核内空間配置との関連2014

    • Author(s)
      吉原美奈子、将麗、赤塚慎也、豊國伸哉、須山幹太
    • Organizer
      第37回日本分子生物学会年会
    • Place of Presentation
      横浜
    • Year and Date
      2014-11-26
    • Related Report
      2014 Annual Research Report
  • [Presentation] Role of histone methyltransferase dG9a during Drosophila embryogenesis - genome-wide identification of target genes2014

    • Author(s)
      Shimaji K, Konishi T, Tanaka S, Yoshida H, Kato Y, Ohkawa Y, Sato T, Suyama M, Kimura H, Yamaguchi M
    • Organizer
      第37回日本分子生物学会年会
    • Place of Presentation
      横浜
    • Year and Date
      2014-11-25
    • Related Report
      2014 Annual Research Report
  • [Presentation] ピーク検出プログラムのロバスト性を評価する方法2014

    • Author(s)
      佐藤哲也、須山幹太
    • Organizer
      第8回日本エピジェネティクス研究会年会
    • Place of Presentation
      東京
    • Year and Date
      2014-05-26
    • Related Report
      2014 Annual Research Report
  • [Presentation] 機能的な転写因子結合領域の特徴2012

    • Author(s)
      佐藤哲也
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡
    • Year and Date
      2012-12-11
    • Related Report
      2012 Annual Research Report
  • [Presentation] 組織特異的転写因子Ad4BP/SF-1による解糖系遺伝子群の転写を介したグルコース代謝制御2012

    • Author(s)
      馬場崇
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡
    • Year and Date
      2012-12-11
    • Related Report
      2012 Annual Research Report
  • [Presentation] 成獣ライディッヒ細胞における新規Ad4BP/SF-1標的遺伝子の同定2012

    • Author(s)
      大竹博之
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡
    • Year and Date
      2012-12-11
    • Related Report
      2012 Annual Research Report
  • [Presentation] Deviation from co-transcriptional splicing in the regions involved in alternative splicing2012

    • Author(s)
      岩田浩明
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡
    • Year and Date
      2012-12-11
    • Related Report
      2012 Annual Research Report
  • [Presentation] Mechanistic analysis of transcription by using RNA-seq data2012

    • Author(s)
      Mikita Suyama
    • Organizer
      Frontiers in Bioinformatics
    • Place of Presentation
      スペイン・ジローナ
    • Year and Date
      2012-10-19
    • Related Report
      2012 Annual Research Report
  • [Presentation] 組織特異的転写因子Ad4BP/SF-1による解糖系遺伝子群の転写を介したグルコース代謝制御2012

    • Author(s)
      馬場崇
    • Organizer
      新学術領域研究「性差構築の分子基盤」第4回領域会議
    • Place of Presentation
      和歌山
    • Year and Date
      2012-10-15
    • Related Report
      2012 Annual Research Report
  • [Presentation] 胎仔型ライディッヒ細胞における遺伝子発現プロファイルの経時的変化の解析および成獣型ライディッヒ細胞との比較2012

    • Author(s)
      宮林香奈子
    • Organizer
      新学術領域研究「性差構築の分子基盤」第4回領域会議
    • Place of Presentation
      和歌山
    • Year and Date
      2012-10-15
    • Related Report
      2012 Annual Research Report
  • [Presentation] 成獣ライディッヒ細胞における新規Ad4BP/SF-1標的遺伝子の同定2012

    • Author(s)
      大竹博之
    • Organizer
      新学術領域研究「性差構築の分子基盤」第4回領域会議
    • Place of Presentation
      和歌山
    • Year and Date
      2012-10-15
    • Related Report
      2012 Annual Research Report
  • [Presentation] RNA-seq発現解析データに見られる性差2012

    • Author(s)
      岩田浩明
    • Organizer
      新学術領域研究「性差構築の分子基盤」第4回領域会議
    • Place of Presentation
      和歌山
    • Year and Date
      2012-10-15
    • Related Report
      2012 Annual Research Report
  • [Presentation] ゲノム情報解析にもとづく性差構築機構の解明2012

    • Author(s)
      須山幹太
    • Organizer
      新学術領域研究「性差構築の分子基盤」第4回領域会議
    • Place of Presentation
      和歌山
    • Year and Date
      2012-10-15
    • Related Report
      2012 Annual Research Report
  • [Presentation] 次世代シーケンサーデータを用いた転写のリードスルーの解析2012

    • Author(s)
      岩田浩明
    • Organizer
      日本遺伝学会第84回大会
    • Place of Presentation
      福岡
    • Year and Date
      2012-09-24
    • Related Report
      2012 Annual Research Report
  • [Presentation] 比較ゲノム解析・ChIP-seq解析によるモチーフ同定の実際2012

    • Author(s)
      須山幹太
    • Organizer
      JSBi・第3回アグリバイオインフォマティクス研究会「モチーフ解析の最前線」
    • Place of Presentation
      東京
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] Next-generation sequencing data analysis to understand mechanistic aspects of transcription2012

    • Author(s)
      Mikita Suyama
    • Organizer
      カタロニア工科大学BSCセミナー
    • Place of Presentation
      スペイン・バルセロナ
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] RNA-Seq解析による胎仔型および成獣型ライディッヒ細胞特異的発現マーカー遺伝子の検索2011

    • Author(s)
      宮林香奈子, 嶋雄一, 馬場崇, 大竹博之, 佐藤哲也, 大川恭行, 須山幹太, 諸橋憲一郎
    • Organizer
      第34回日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜
    • Related Report
      2011 Annual Research Report
  • [Presentation] ChIP-Seq法によるAd4BP/SF-1の標的遺伝子の同定2011

    • Author(s)
      馬場崇, 大竹博之, 宮林香奈子, 嶋雄一, 佐藤哲也, 木村宏, 大川恭行, 須山幹太, 諸橋憲一郎
    • Organizer
      第34回日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜
    • Related Report
      2011 Annual Research Report
  • [Presentation] ChIP-Seqデータを用いた核内受容体共役因子の探索2011

    • Author(s)
      佐藤哲也, 須山幹太
    • Organizer
      第34回日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜
    • Related Report
      2011 Annual Research Report
  • [Presentation] 遺伝子発現情報を利用したヒストン修飾領域同定法

    • Author(s)
      佐藤哲也、大川恭行,須山幹太
    • Organizer
      第7回日本エピジェネティクス研究会年会
    • Place of Presentation
      奈良
    • Related Report
      2013 Annual Research Report
  • [Presentation] ゲノム情報解析にもとづく性差構築機構の解明

    • Author(s)
      須山幹太
    • Organizer
      新学術領域研究「性差構築の分子基盤」第5回領域会議
    • Place of Presentation
      佐賀
    • Related Report
      2013 Annual Research Report
  • [Presentation] Ad4BP/SF-1レギュロンによる統括的なステロイドホルモン産生制御

    • Author(s)
      馬場崇,大竹博之,佐藤哲也,宮林香奈子,宍戸祐里菜,嶋雄一,大川恭行,須山幹太,諸橋憲一郎
    • Organizer
      第21回日本ステロイドホルモン学会学術集会
    • Place of Presentation
      大阪
    • Related Report
      2013 Annual Research Report
  • [Presentation] 成獣ライディッヒ細胞における新規Ad4BP/SF-1標的遺伝子の同定

    • Author(s)
      大竹博之, 馬場崇, 佐藤哲也, 嶋雄一, 宮林香奈子, 木村宏, 大川恭行, 須山幹太, 諸橋憲一郎
    • Organizer
      第21回日本ステロイドホルモン学会学術集会
    • Place of Presentation
      大阪
    • Related Report
      2013 Annual Research Report
  • [Presentation] RNA-seqデータを利用したヒストン修飾領域同定法

    • Author(s)
      佐藤哲也,大川恭行,須山幹太
    • Organizer
      第36回日本分子生物学会年会
    • Place of Presentation
      神戸
    • Related Report
      2013 Annual Research Report
  • [Presentation] Ad4BP/SF-1レギュロンによる統括的な細胞内代謝制御

    • Author(s)
      馬場崇,大竹博之,佐藤哲也,宮林香奈子,嶋雄一,八木美佳子,康東天,大川恭行, 須山幹太,諸橋憲一郎
    • Organizer
      第36回日本分子生物学会年会
    • Place of Presentation
      神戸
    • Related Report
      2013 Annual Research Report
  • [Presentation] Cbx2/M33ノックアウトマウス成長期における長管骨形成異常

    • Author(s)
      福井由宇子,馬場崇,大竹博之,佐藤哲也,大川恭行,須山幹太,諸橋憲一郎,深見真紀
    • Organizer
      第36回日本分子生物学会年会
    • Place of Presentation
      神戸
    • Related Report
      2013 Annual Research Report
  • [Presentation] 胎仔型ライディッヒ細胞における遺伝子発現プロファイルの経時的変化

    • Author(s)
      宮林香奈子,嶋雄一,佐藤哲也,馬場崇,大竹博之,大川恭行,須山幹太,諸橋憲一郎
    • Organizer
      第17回日本生殖内分泌学会学術集会
    • Place of Presentation
      神戸
    • Related Report
      2013 Annual Research Report
  • [Presentation] RNA-seqデータを利用したヒストン修飾領域同定法

    • Author(s)
      佐藤哲也,大川恭行,須山幹太
    • Organizer
      CREST「エピゲノム研究に基づく診断・治療へ向けた新技術の創出」研究領域・第3回領域会議
    • Place of Presentation
      福岡
    • Related Report
      2013 Annual Research Report
  • [Remarks] GenomeCons

    • URL

      http://bioinfo.sls.kyushu-u.ac.jp/genomecons/

    • Related Report
      2014 Annual Research Report

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Published: 2010-08-23   Modified: 2019-07-29  

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