Development of integrated database for metabolome data

• Project/Area Number: 24710215
• Research Category: Grant-in-Aid for Young Scientists (B)
• Allocation Type: Multi-year Fund
• Research Field: Genome biology
• Research Institution: Keio University (2013); Kyoto University (2012)
• Principal Investigator: MASAHIRO Sugimoto 慶應義塾大学, 政策・メディア研究科, 准教授 (30458963)
• Project Period (FY): 2012-04-01 – 2014-03-31
• Project Status: Completed (Fiscal Year 2013)
• Budget Amount: ¥4,680,000 (Direct Cost: ¥3,600,000、Indirect Cost: ¥1,080,000); Fiscal Year 2013: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000); Fiscal Year 2012: ¥3,510,000 (Direct Cost: ¥2,700,000、Indirect Cost: ¥810,000)
• Keywords: メタボローム / データベース / パスウェイ / 可視化 / データ解析 / キャピラリー電気泳動・質量分析装置

Research Abstract

This study aimed to develop a database of metabolome data because the standardization of metabolomics data is not well established compared to the other omics data. We have developed MMMDB that contains metabolomics profiles from single mice. We also developed data analysis methods for clinical information usually attached as metabolomic data sample information. The pathway visualization tools that enable users to edit the pathway easiliy.

Research Products

• [Journal Article] Comparison of robustness against missing values of alternative decision tree and multiple logistic regression for predicting clinical data in primary breast cancer (2013)
  • Author(s): Masahiro Sugimoto, Masahiro Takada, Masakazu Toi
  • Journal Title: Conf Proc IEEE Eng Med Biol Soc Pages: 3054-3057
  • DOI: 10.1109/embc.2013.6610185
  • Peer Reviewed
• [Presentation] A challenge filling in the gap between experimental and theoretical biology (2013)
  • Author(s): Masahiro Sugimoto
  • Organizer: Complex Biodynamics & Networks
  • Place of Presentation: Yamagata, Japan
  • Year and Date: 2013-11-12
• [Presentation] Bioinformatics provides novel insights into metabolomics (2013)
  • Author(s): Masahiro Sugimoto
  • Organizer: International Conference on Applied Informatics for Health and Life Science
  • Place of Presentation: Istanbul, Turkey
  • Year and Date: 2013-09-11
• [Presentation] Comparison of robustness against missing values of alternative decision tree and multiple logistic regression for predicting clinical data in primary breast cancer (2013)
  • Author(s): Masahiro Sugimoto, Masahiro Takada, Masakazu Toi
  • Organizer: 35^<th> Annual International IEEE EMBS Conference
  • Place of Presentation: Osaka, Japan
  • Year and Date: 2013-07-05
• [Presentation] A challenge filling in the gap between experimental and theoretical biology (2013)
  • Author(s): Masahiro Sugimoto
  • Organizer: Complex Biodynamics & Networks
  • Place of Presentation: 山形県
• [Presentation] Bioinformatics provides novel insights into metabolomics (2013)
  • Author(s): Masahiro Sugimoto
  • Organizer: International Conference on Applied Informatics for Health and Life Science
  • Place of Presentation: イスタンブール（トルコ）
• [Presentation] Comparison of Robustness against Missing Values of Alternative Decision Tree and Multiple Logistic Regression for Predicting Clinical Data in Primary Breast Cancer (2013)
  • Author(s): Masahiro Sugimoto, Masahiro Takada, Masakazu Toi
  • Organizer: 35th Annual International IEEE EMBS Conference
  • Place of Presentation: 大阪
• [Presentation] MMMDB:マウスのメタボロームデータベース (2012)
  • Author(s): 杉本昌弘
  • Organizer: 第７回メタボロームシンポジウム
  • Place of Presentation: 鶴岡市、山形
  • Invited
• [Presentation] Freely accessible transcriptomics and metabolomics databases (2012)
  • Author(s): Masahiro Sugimoto
  • Organizer: International Conference on Statistical Data Mining for Bioinformatics, Health Agriculture and Environment
  • Place of Presentation: Rajshahi, Banbladesh
• [Book] システムバイオロジー:メタボロームの展開・生命のビッグデータ利用の最前線Frontier of Utilization of Big Data in Sciences(上田充美監修) (2014)
  • Author(s): 杉本昌弘
  • Publisher: シーエムシー出版社
• [Book] システムバイオロジー:メタボロームの展開, 生命のビッグデータ利用の最前線 (2014)
  • Author(s): 杉本昌弘
  • Total Pages: 231
  • Publisher: シーエムシー出版
• [Remarks]
  • URL: http://mmmdb.iab.keio.ac.jp/
• [Remarks] MMMDB
  • URL: http://mmmdb.iab.keio.ac.jp/