Development of new system for making ortholog dataset

• Project/Area Number: 22710184
• Research Category: Grant-in-Aid for Young Scientists (B)
• Allocation Type: Single-year Grants
• Research Field: Genome biology
• Research Institution: Shizuoka University
• Principal Investigator: HORIIKE Tokumasa 静岡大学, 若手グローバル研究リーダー育成拠点, 特任助教(テニュアトラック) (20535306)
• Project Period (FY): 2010 – 2011
• Project Status: Completed (Fiscal Year 2011)
• Budget Amount: ¥4,420,000 (Direct Cost: ¥3,400,000、Indirect Cost: ¥1,020,000); Fiscal Year 2011: ¥650,000 (Direct Cost: ¥500,000、Indirect Cost: ¥150,000); Fiscal Year 2010: ¥3,770,000 (Direct Cost: ¥2,900,000、Indirect Cost: ¥870,000)
• Keywords: ゲノム進化学 / オーソログ / 系統樹 / 系統解析

Research Abstract

New system to construct ortholog dataset for organisms whose genome sequence data are available was developed. Ortholog is a homolog derived from speciation. The ortholog dataset is made with amino acid sequence data for all organisms by this system automatically. Since out-paralogs and horizontally transferred gene are removed from the dataset through the system, the dataset is suitable for phylogenetic analysis with massive amount of gene data.

Research Products

• [Journal Article] HGT-Gen : a tool for generating a phylogenetic tree with horizontal gene transfer (2011)
  • Author(s): Tokumasa Horiike
  • Journal Title: Bioinformation Daisuke Pages: 211-213
  • Peer Reviewed
• [Journal Article] HGT-Gen : a tool for generating a phylogenetic tree with horizontal gene transfer (2011)
  • Author(s): Tokumasa Horiike
  • Journal Title: Bioinformation Volume: 7 Pages: 211-213
  • Peer Reviewed
• [Presentation] 遺伝子水平伝播シミュレーションプログラム(HGT-Gen)の開発 (2012)
  • Author(s): 堀池徳祐
  • Organizer: 第6回日本ゲノム微生物学会年会
  • Place of Presentation: 東京
  • Year and Date: 2012-03-11
• [Presentation] 遺伝子水平伝播シミュレーションプログラム(HGT-Gen)の開発 (2012)
  • Author(s): 堀池徳祐
  • Organizer: 第6回日本ゲノム微生物学会年会
  • Place of Presentation: 立教大学(東京都)
  • Year and Date: 2012-03-11
• [Presentation] Development of new method for making ortholog dataset (2011)
  • Author(s): Horiike Tokumasa
  • Organizer: Shizuoka University International Symposium 2011
  • Place of Presentation: B-nest(静岡県)
  • Year and Date: 2011-11-29
• [Presentation] Development of new method for making ortholog dataset (2011)
  • Author(s): Horiike Tokumasa
  • Organizer: Young Researchers Conference on Evolutionary Genomics
  • Place of Presentation: 学術総合センター(東京)(招待講演)
  • Year and Date: 2011-08-01
• [Presentation] Development of new method for making ortholog dataset (2011)
  • Author(s): Tokumasa Horiike
  • Organizer: The2010 Annual meeting of the society for molecular
  • Place of Presentation: Kyoto
  • Year and Date: 2011-07-27
• [Presentation] Development of new method for making ortholog dataset (2011)
  • Author(s): Horiike Tokumasa
  • Organizer: 19th annual meeting of the society for molecular biology and evolution
  • Place of Presentation: 京都大学(京都府)
  • Year and Date: 2011-07-26
• [Presentation] Development of ortholog dataset for phylogenetic analysis (2010)
  • Author(s): 堀池徳祐
  • Organizer: BMB2010(第33回日本分子生物学会年会・第83回日本生化学会大会合同大会)
  • Place of Presentation: 神戸
  • Year and Date: 2010-12-07
• [Presentation] Development of ortholog dataset for phylogenetic analysis (2010)
  • Author(s): 堀池徳祐
  • Organizer: BMB2010(第33回日本分子生物学会年会・第83回日本生化学会大会合同大会)
  • Place of Presentation: 神戸国際展示場(兵庫県)
  • Year and Date: 2010-12-07
• [Presentation] 系統解析用オーソログデータセット作成法の開発 (2010)
  • Author(s): 堀池徳祐
  • Organizer: 第12回日本進化学会大会
  • Place of Presentation: 東京工業大学(東京)
  • Year and Date: 2010-08-04
• [Presentation] Development of new method for making ortholog dataset (2010)
  • Author(s): Horiike Tokumasa
  • Organizer: 18th annual meeting of the society for molecular biology and evolution
  • Place of Presentation: リヨン国際会議場(リヨン)
  • Year and Date: 2010-07-05
• [Remarks]
  • URL: http://www.grl.shizuoka.ac.jp/~thoriike/research.html