• Search Research Projects
  • Search Researchers
  • How to Use
  1. Back to previous page

Tissue Specific Analysis of Human and Mouse using CAGE absolute gene expression profiles

Research Project

Project/Area Number 19710166
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeSingle-year Grants
Research Field 基礎ゲノム科学
Research InstitutionOsaka University

Principal Investigator

TAKENAKA Yoichi  Osaka University, 大学院・情報科学研究科, 准教授 (00324830)

Project Period (FY) 2007 – 2009
Project Status Completed (Fiscal Year 2009)
Budget Amount *help
¥2,560,000 (Direct Cost: ¥2,200,000、Indirect Cost: ¥360,000)
Fiscal Year 2009: ¥910,000 (Direct Cost: ¥700,000、Indirect Cost: ¥210,000)
Fiscal Year 2008: ¥650,000 (Direct Cost: ¥500,000、Indirect Cost: ¥150,000)
Fiscal Year 2007: ¥1,000,000 (Direct Cost: ¥1,000,000)
KeywordsCAGE / バイオインフォマティクス / 発現プロファイル / 組織特異性 / 種間比較
Research Abstract

Genes are known as the blueprints of proteins. They exist in all the cell of an individual. The amount of genes the cell used in is different among different tissues. This is the tissue-specificity in the view point of gene expression. The number of expressions or mRNAs can be measured by the CAGE technology. I studied the way how to compare the tissue-specificity among tissues and found information-content is a good measure.

Report

(4 results)
  • 2009 Annual Research Report   Final Research Report ( PDF )
  • 2008 Annual Research Report
  • 2007 Annual Research Report
  • Research Products

    (23 results)

All 2010 2009 2008 2007 Other

All Journal Article (8 results) (of which Peer Reviewed: 8 results) Presentation (14 results) Remarks (1 results)

  • [Journal Article] mproved prediction method for protein interactions using both structural and functional characteristics of proteins2010

    • Author(s)
      Tatsuya Yoshikawa
    • Journal Title

      IPSJ transactions on Bioinformatics 3

      Pages: 10-23

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line2009

    • Author(s)
      Harukazu Suzuki, Alistair R R Forrest,Erik van Nimwegen, Carsten O Daub, PiotrJ Balwierz, Katharine M Irvine, TimoLassmann, Timothy Ravasi, Yuki Hasegawa,Michiel J L de Hoon, Shintaro Katayama,Kate Schroder, Piero Carninci, YasuhiroTomaru, Mutsumi Kanamori-Katayama,Atsutaka Kubosaki, Altuna Akalin,Yoshinari Ando, Erik Arner, Maki Asada,Hiroshi Asahara, Timothy Bailey, VladimirB Bajic, Denis Bauer, Anthony G Beckhouse,intracellularjunctioncell-cell adhegapjunction rensjunctiondesmosome tight junctionplasmodesma subapical complexapical complexconnexsoncomplexspot adherensjunctionzonulaadherensfasciaadherensinter cellularcanaliculus468403112717929278233802138114420133588193782742632424GO term liverlungNicolas Bertin, Johan Bjoerkegren, FrankBrombacher, Erika Bulger, Alistair M Chalk,Joe Chiba, Nicole Cloonan, Adam Dawe,Josee Dostie, Paer G Engstroem, MagbubahEssack, Geoffrey J Faulkner, J Lynn Fink,David Fredman, Ko Fujimori, Masaaki Furuno,Takashi Gojobori, Julian Gough, Sean MGrimmond, Mika Gustafsson, MegumiHashimoto, Takehiro Hashimoto, MarikoHatakeyama, Susanne Heinze, Winston Hide,Oliver Hofmann, Michael Hoernquist,Lukasz Huminieck, Kazuho Ikeo, NaokoImamoto, Satoshi Inoue, Yusuke Inoue,Ryoko Ishihara, Takao Iwayanagi, AndersJacobsen, Mandeep Kaur, Hideya Kawaji,Markus C Kerr1, Ryuichiro Kimura, SyuheiKimura, Yasumasa Kimura, Hiroaki Kitano,Hisashi Koga, Toshio Kojima, Shinji Kondo,Takeshi Konno, Anders Krogh, Adele Kruger,Ajit Kumar, Boris Lenhard, AndreasLennartsson, Morten Lindow, Marina Lizio,Cameron MacPherson, Norihiro Maeda,Christopher A Maher, Monique Maqungo,Jessica Mar, Nicholas A Matigian, HideoMatsuda, John S Mattick, Stuart Meier, SeiMiyamoto, Etsuko Miyamoto-Sato, KazuhikoNakabayashi, Yutaka Nakachi, Mika Nakano,Sanne Nygaard, Toshitsugu Okayama,Yasushi Okazaki, Haruka Okuda-Yabukami,Valerio Orlando, Jun Otomo, MikhailPachkov, Nikolai Petrovsky, CharlesPlessy, John Quackenbush, AleksandarRadovanovic, Michael Rehli, Rintaro Saito,Albin Sandelin, Sebastian Schmeier,Christian Schoenbach, Ariel S Schwartz,Colin A Semple, Miho Sera, Jessica Severin,Katsuhiko Shirahige, Cas Simons, George St.Laurent, Masanori Suzuki, Takahiro Suzuki,Matthew J Sweet, Ryan J Taft, Shizu Takeda,Yoichi Takenaka, Kai Tan, Martin S Taylor,Rohan D Teasdale, Jesper Tegne'r, SarahTeichmann, Eivind Valen, Claes Wahlestedt,Kazunori Waki, Andrew Waterhouse,Christine A Wells, Ole Winther, Linda Wu,Kazumi Yamaguchi, Hiroshi Yanagawa, JunYasuda, Mihaela Zavolan, David A Hume,Takahiro Arakawa, Shiro Fukuda, KengoImamura, Chikatoshi Kai, Ai Kaiho, TsugumiKawashima, Chika Kawazu, Yayoi Kitazume,Miki Kojima, Hisashi Miura, KayokoMurakami, Mitsuyoshi Murata, NorikoNinomiya, Hiromi Nishiyori, Shohei Noma,Chihiro Ogawa, Takuma Sano, ChristopheSimon, Michihira Tagami, Yukari Takahashi,Jun Kawai, Yoshihide Hayashizaki
    • Journal Title

      Nature Genetics Vol.41,No.5

      Pages: 553-562

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line2009

    • Author(s)
      The FANTOM Consortium, Riken Omics Science Center
    • Journal Title

      Nature Genetics 41

      Pages: 553-562

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] A Distributed-Processing System for Accelerating Biological Research using Data-Staging2008

    • Author(s)
      Yoshiyuki Kido, Shigeto Seno, Susumu Date, Yoichi Takenaka, Hideo Matsuda
    • Journal Title

      IPSJ Transactions on Bioinformatics Vol.49,No.SIG5(TBIO4)

      Pages: 58-64

    • NAID

      110006684910

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] A Distributed-Processing System for Accelerating Biological using Data-Staging2008

    • Author(s)
      Yoshiyuki Kido
    • Journal Title

      IPSJ Transactions on Bioinformatics 49(印刷中)

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] A Combination Method of the Tanimoto Coefficient and Proximity Measure of andom Forest for Compound Activity Prediction2008

    • Author(s)
      Gen Kawamura
    • Journal Title

      IPSJ Transactions on Bioinformatics 49(印刷中)

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Tissue-specific functions based on information content of gene ontology using cap analysis gene expression2007

    • Author(s)
      Sami Maekawa, Atsuko Matsumoto, Yoichi Takenaka, Hideo Matsuda
    • Journal Title

      Medical and Biological Engineering and Computing Vol.45,No.11

      Pages: 1029-1036

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Tissue-Specific Functions based on Infomation Content of Gane Ontology using Cap Analyis Gene Expression2007

    • Author(s)
      Sami Maekawa
    • Journal Title

      Medical and Biological Engineering and Computing 45

      Pages: 1029-1036

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Presentation] A Method for the Inference of Gene Regulatory Networks based on Dynamic Bayesian Network with Clustering of Time-Series Subsequences2009

    • Author(s)
      Yuya Shuto
    • Organizer
      20th International Conference on Genome Informatics (GIW2009)
    • Place of Presentation
      Yokohama
    • Year and Date
      2009-12-15
    • Related Report
      2009 Annual Research Report
  • [Presentation] A Method of Estimation of Crosstalk Genes with Multiple Time-Series Gene Expression Profiles2009

    • Author(s)
      Kiyoshi Yoshizawa
    • Organizer
      20th International Conference on Genome Informatics (GIW2009)
    • Place of Presentation
      Yokohama
    • Year and Date
      2009-12-14
    • Related Report
      2009 Annual Research Report
  • [Presentation] A Method for Analyzing Gene Expression Profiles based on the Underlying Structures2009

    • Author(s)
      Shigeto Seno, Yoichi Takenaka, Hideo Matsuda
    • Organizer
      Proceedings of 17th Annual International Conference on Intelligent Systems for Molecular Biology and 8th European Conference on Computational Biology (ISMB/ECCB2009)
    • Place of Presentation
      Stockholm, Sweden
    • Year and Date
      2009-06-29
    • Related Report
      2009 Final Research Report
  • [Presentation] A Method for Inference of Gene Regulatory Networks based on Bayesian Network with Clustering of Time-Series Subsequences2009

    • Author(s)
      Yuya Shuto
    • Organizer
      17th Annual International Conference on Intelligent Systems for Molecular Biology
    • Place of Presentation
      Stockholm, Sweden
    • Year and Date
      2009-06-29
    • Related Report
      2009 Annual Research Report
  • [Presentation] A Method for Analysis of Tissue-Specific Transcriptional Control Using Distributions of Transcription Starting Sites2008

    • Author(s)
      Mitsuru Jikeya, Shigeto Seno, Yoichi Takenaka, Hideo Matsuda
    • Organizer
      Proceedings of the 2008 Annual Conference of the Japanese Society for Bioinformatics (JSBi2008)
    • Place of Presentation
      Senri-Chuo
    • Year and Date
      2008-12-15
    • Related Report
      2009 Final Research Report
  • [Presentation] A method for analysis of tissue-specific transcriptional control using distributions of transcription starting sites2008

    • Author(s)
      Mitsuru Jikeya
    • Organizer
      The 2008 Annual Conference of the Japan Society for Bioinformatics
    • Place of Presentation
      Senri-Chuo, Osaka, Japan
    • Year and Date
      2008-12-15
    • Related Report
      2008 Annual Research Report
  • [Presentation] Tissue specificity measured by differences in information content between target tissue and whole tissue2008

    • Author(s)
      Yoichi Takenaka, Hideo Matsuda
    • Organizer
      Proceedings of 16th International Conference on Intelligent Systems for Molecular Biology (ISMB2008)
    • Place of Presentation
      Toronto
    • Year and Date
      2008-07-21
    • Related Report
      2009 Final Research Report
  • [Presentation] Tissue specificity measured by differences in information content between target tissue and whole tissue2008

    • Author(s)
      Yoichi Takenaka
    • Organizer
      International Society for Computational Biology 2008
    • Place of Presentation
      Toronto, Canada
    • Year and Date
      2008-07-20
    • Related Report
      2008 Annual Research Report
  • [Presentation] A Combination methoed between Tanimoto coefficient and Proximity measureof Random Forest for Compound Activity Prediction2008

    • Author(s)
      河村元
    • Organizer
      情報処理学会バイオ情報学研究会
    • Place of Presentation
      九州大学伊都キャンパス
    • Year and Date
      2008-03-04
    • Related Report
      2007 Annual Research Report
  • [Presentation] Tanimoto係数の性質に基づく化合物の類似度検索の高速化手法2008

    • Author(s)
      清水隆史
    • Organizer
      情報処理学会バイオ情報学研究会
    • Place of Presentation
      九州大学伊都キャンパス
    • Year and Date
      2008-03-04
    • Related Report
      2007 Annual Research Report
  • [Presentation] TF-IDFフィルタリングによる機能的に類似した生物情報解析ワークフローの検索手法2007

    • Author(s)
      瀬尾淳哉
    • Organizer
      情報処理学会バイオ情報学研究会
    • Place of Presentation
      産業技術総合研究所 臨海副都心センター
    • Year and Date
      2007-12-21
    • Related Report
      2007 Annual Research Report
  • [Presentation] A Methoed for Retrieving Functionally Similar Bioinformatics Work flows2007

    • Author(s)
      Junya Seo
    • Organizer
      Annual Conference of Japanese Society for Bioinformatics
    • Place of Presentation
      東京 日本科学未来館
    • Year and Date
      2007-12-17
    • Related Report
      2007 Annual Research Report
  • [Presentation] GO based Tissue Specific Functions of Mouse using Countable Gene Expression Profiles2007

    • Author(s)
      Yoichi Takenaka, Akiko Matsumoto, Hideo Matsuda
    • Organizer
      Genome Informatics
    • Place of Presentation
      Singapore
    • Year and Date
      2007-12-04
    • Related Report
      2009 Final Research Report
  • [Presentation] GO based Tissue Specific Functions of Mouse using Countable Gene Ex pression Profiles2007

    • Author(s)
      Yoichi Takenaka
    • Organizer
      18th International Conference on Genome Infomatics
    • Place of Presentation
      シンガポール
    • Year and Date
      2007-12-04
    • Related Report
      2007 Annual Research Report
  • [Remarks]

    • URL

      http://tsf.ics.es.osaka-u.ac.jp/

    • Related Report
      2008 Annual Research Report

URL: 

Published: 2007-04-01   Modified: 2016-04-21  

Information User Guide FAQ News Terms of Use Attribution of KAKENHI

Powered by NII kakenhi