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Backbone Database for Understanding the Biological Systems

Research Project

Project/Area Number 17020005
Research Category

Grant-in-Aid for Scientific Research on Priority Areas

Allocation TypeSingle-year Grants
Review Section Biological Sciences
Research InstitutionKyoto University

Principal Investigator

KANEHISA Minoru  Kyoto University, 化学研究所, 教授 (70183275)

Co-Investigator(Kenkyū-buntansha) HATTORI Masahiro  京都大学, 化学研究所, 助教 (60372554)
KATAYAMA Toshiaki  東京大学, 医科学研究所, 助教 (60396869)
Project Period (FY) 2005 – 2009
Project Status Completed (Fiscal Year 2009)
Budget Amount *help
¥356,100,000 (Direct Cost: ¥356,100,000)
Fiscal Year 2009: ¥70,800,000 (Direct Cost: ¥70,800,000)
Fiscal Year 2008: ¥70,200,000 (Direct Cost: ¥70,200,000)
Fiscal Year 2007: ¥70,200,000 (Direct Cost: ¥70,200,000)
Fiscal Year 2006: ¥70,200,000 (Direct Cost: ¥70,200,000)
Fiscal Year 2005: ¥74,700,000 (Direct Cost: ¥74,700,000)
Keywordsゲノム / プロテオーム / バイオインフォマティクス / パスウェイ・ネットワーク / ケミカルゲノム / ケモインフォマティクス / システム生物学 / ゲノムデータベース / パスウェイデータベース / ネットワーク解析 / 相互作用解析 / 反応予測 / バイオィンフォマティクス / パスウェィデータベース
Research Abstract

We have expanded KEGG, an integrated database resource for understanding higher-level systemic functions and utilities of the cell, the organism, and the ecosystem from genomic and metagenomic information. Specifically, we have developed the genome annotation methods to predict molecular networks from genome sequences for deciphering the biological systems and the chemical annotation methods to predict chemical reactions from chemical compound structures for uncovering microbial degradation pathways of environmental compounds and biosynthetic pathways of plant secondary metabolites.

Report

(6 results)
  • 2009 Annual Research Report   Final Research Report ( PDF )
  • 2008 Annual Research Report
  • 2007 Annual Research Report
  • 2006 Annual Research Report
  • 2005 Annual Research Report
  • Research Products

    (101 results)

All 2010 2009 2008 2007 2006 2005 Other

All Journal Article (62 results) (of which Peer Reviewed: 52 results) Presentation (28 results) Book (4 results) Remarks (7 results)

  • [Journal Article] PathPred: an enzyme-catalyzed metabolic pathway prediction server.2010

    • Author(s)
      Moriya, Y., Shigemizu, D., Hattori, M., Tokimatsu, T., Kotera, M., Goto, S., Kanehisa, M.
    • Journal Title

      Nucleic Acids Res. Epub 2010

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] KEGG for representation and analysis of molecular networks involving diseases and drugs.2010

    • Author(s)
      Kanehisa, M., Goto, S., Furumichi, M., Tanabe, M., Hirakawa, M.
    • Journal Title

      Nucleic Acids Res. 38

    • Related Report
      2009 Annual Research Report 2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] E-zyme: predicting potential EC numbers from the chemical transformation pattern of substrate-product pairs.2009

    • Author(s)
      Yamanishi, Y., Hattori, M., Kotera, M., Goto, S., Kanehisa, M.
    • Journal Title

      Bioinformatics 25

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Extraction and analysis of chemical modification patterns in drug development.2009

    • Author(s)
      Shigemizu, D., Araki, M., Okuda, S., Goto, S., Kanehisa, M.
    • Journal Title

      J. Chem. Inf. Model. 49

      Pages: 1122-1129

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Comprehensive analysis of glycosyltransferases in eukaryotic genomes for structural and functional characterization of glycans.2009

    • Author(s)
      Hashimoto, K., Tokimatsu, T., Kawano, S., Yoshizawa, A.C., Okuda, S., Goto, S., Kanehisa, M.
    • Journal Title

      Carbohydr. Res. 344

      Pages: 881-887

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Characterization and classification of adverse drug interactions.2009

    • Author(s)
      Takarabe, M., Shigemizu, D., Kotera, M., Goto, S., Kanehisa, M.
    • Journal Title

      Genome Informatics 22

      Pages: 167-175

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Analysis of a lipid biosynthesis protein family and phospholipid structural variations.2009

    • Author(s)
      Tanaka, M., Moriya, Y., Goto, S., Kanehisa, M.
    • Journal Title

      Genome Informatics 22

      Pages: 191-201

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] E-zyme : predicting potential EC numbers from the chemical transformation pattern of substrate-product pairs.2009

    • Author(s)
      Yamanishi, Y., Hattori, M., Kotera, M., Goto, S., Kanehisa, M.
    • Journal Title

      Bioinformatics 25

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Extraction and analysis of chemical modification patterns in drug development.2009

    • Author(s)
      Shigemizu, D., Araki, M., Okuda, S., Goto, S., Kanehisa, M.
    • Journal Title

      J.Chem. Inf. Model. 49

      Pages: 1122-1129

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Comprehensive analysis of glycosyltransferases in eukaryotic genomes for structural and functional characterization of glycans.2009

    • Author(s)
      Hashimoto, K., Tokimatsu, T., Kawano, S., Yoshizawa, A.C. , Okuda, S., Goto, S.,Kanehisa, M.
    • Journal Title

      Carbohydr. Res. 344

      Pages: 881-887

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Extraction and analysis of chemical modification patterns in drug development2009

    • Author(s)
      Shigemizu, D., Araki, M., Okuda, S., Goto, S., and Kanehisa, M
    • Journal Title

      J. Chem. Inf. Model (in press)

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Comprehensive analysis of glycosyltransferases in eukaryotic genomes for structural and functional characterization of glycans2009

    • Author(s)
      Hashimoto, K., Tokimatsu, T., Kawano, S., Yoshizawa, A.C., Okuda, S., Goto, S., and Kaehisa, M
    • Journal Title

      Carbohydr. Res (in press)

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] E-zyme : predicting potential EC numbers from the chemical transformation pattern of substrate-product2009

    • Author(s)
      Yamanishi, Y., Hattori, M., Kotera, M., Goto, S., and
    • Journal Title

      Bioinformatics (in press)

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Prediction of drug-target interaction networks from the integration of chemical and genomic spaces.2008

    • Author(s)
      Yamanishi, Y., Araki, M., Gutteridge, A., Honda, W., Kanehisa, M.
    • Journal Title

      Bioinformatics 24

      Pages: 232-240

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] KEGG Atlas mapping for global analysis of metabolic pathways.2008

    • Author(s)
      Okuda, S., Yamada, T., Hamajima, M., Itoh, M., Katayama, T., Bork, P., Goto, S., Kanehisa, M.
    • Journal Title

      Nucleic Acids Res. 36

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Systematic survey for novel types of prokaryotic retroelements based on gene neighborhood and protein architecture.2008

    • Author(s)
      Kojima, K.K., Kanehisa, M.
    • Journal Title

      Mol. Biol. Evol. 25

      Pages: 1395-1404

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] KEGG for linking genomes to life and the environment.2008

    • Author(s)
      Kanehisa, M., Araki, M., Goto, S., Hattori, M., Hirakawa, M., Itoh, M., Katayama, T., Kawashima, S., Okuda, S., Tokimatsu, T., Yamanishi, Y.
    • Journal Title

      Nucleic Acids Res. 36

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] The repertoire of desaturases and elongases reveals fatty acid variations in 56 eukaryotic genomes.2008

    • Author(s)
      Hashimoto, K., Yoshizawa, A.C., Okuda, S., Kuma, K., Goto, S., Kanehisa, M.
    • Journal Title

      J. Lipid Res. 49

      Pages: 183-191

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Systematic survey for novel types of prokaryotic retroelements based on gene neighborhood and protein architecture2008

    • Author(s)
      Kojima, K.K. and Kanehisa, M.
    • Journal Title

      Mol. Biol. Evol 25

      Pages: 1395-1404

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] KEGG Atlas mapping for global analysis of metabolic pathways2008

    • Author(s)
      Okuda ; S., Yamada, T., Hamajima, M., Itoh, M., Katayama, T., Bork, P., Goto. S. and Kanehisa, M
    • Journal Title

      Nucleic Acids Res 36

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Prediction of drug-target interaction networks from the integration of chemical and genomic spaces2008

    • Author(s)
      Yamanishi, Y., Araki, M., Gutteridge, A., Honda, W., and
    • Journal Title

      Bioinformatics 24

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Mining significant tree patterns in carbohydrate sugar chains2008

    • Author(s)
      Hashimoto, K., Takigawa, I., Shiga, M., Kanehisa, M., and
    • Journal Title

      Bioinformatics 24

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Network analysis of adverse drug interactions2008

    • Author(s)
      Takarabe, M., Okuda, S., Itoh, M., Tokimatsu, T., Goto, S., and Kariphisa, M
    • Journal Title

      Genome Informatics 20

      Pages: 252-259

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Generalized reaction patterns for prediction of unknown enzymatic reactions2008

    • Author(s)
      Shimizu, Y., Hattori, M., Goto, S., and Kanehisa. M
    • Journal Title

      Genome Informatics 20

      Pages: 149-158

    • NAID

      130003997519

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] The repertoire of desaturases and elongases reveals fatty acid variations in 56 eukaryotic genomes.2008

    • Author(s)
      Hashimoto, K., Yoshizawa, A.C., Okuda, S., Kuma, K., Goto, S., and Kanehisa, M.
    • Journal Title

      J. Lipid Res. 49

      Pages: 183-191

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] KEGG for linking genomes t0 life and the environment.2008

    • Author(s)
      Kanehisa, M., Araki, M., Goto, S., Hattori, M., Hirakawa, M., Itoh, M., Katayama, T., Kawashima, S., Okuda, S., Tokimatsu, T., and yamanishi, Y.
    • Journal Title

      Nucleic Acids Res. 6

      Pages: 480-484

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Identification of endocrine disruptor biodegradation by integration of structure-activity relationship with pathway analysis.2007

    • Author(s)
      Kadowaki, T., Wheelock, C.E., Adachi, T., Kudo, T., Okamoto, S., Tanaka, N., Tonomura, K., Tsujimoto, G., Mamitsuka, H., Goto, S., Kanehisa, M.
    • Journal Title

      Environ. Sci. Technol. 41

      Pages: 7997-8003

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Mining prokaryotic genomes for unknown amino acids: a stop-codon-based approach.2007

    • Author(s)
      Fujita, M., Mihara, H., Goto, S., Esaki, N., Kanehisa, M.
    • Journal Title

      BMC Bioinformatics 8

      Pages: 225-225

    • NAID

      120004770237

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Observing metabolic functions at the genome scale.2007

    • Author(s)
      er, J.C., de Daruvar, A., Kanehisa, M.
    • Journal Title

      Genome Biol. 8

    • NAID

      120004770252

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Evolutionary history and functional implications of protein domains and their combinations in eukaryotes.2007

    • Author(s)
      Itoh, M., Nacher, J.C., Kuma, K.I., Goto, S., Kanehisa, M.
    • Journal Title

      Genome Biol. 8

    • NAID

      120004770238

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] The commonality of protein interaction networks determined in Neurodegenerative disorders (NDDs).2007

    • Author(s)
      Limviphuvadh, V., Tanaka, S., Goto, S., Ueda, K., Kanehisa, M.
    • Journal Title

      Bioinformatics 23

      Pages: 2129-2138

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] KAAS: an automatic genome annotation and pathway reconstruction server.2007

    • Author(s)
      Moriya, Y., Itoh, M., Okuda, S., Yoshizawa, A., Kanehisa, M.
    • Journal Title

      Nucleic Acids Res. 35

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Systematic analysis of enzyme-catalyzed reaction patterns and prediction of microbial biodegradation pathways.2007

    • Author(s)
      Oh, M., Yamada, T., Hattori, M., Goto, S., Kanehisa, M.
    • Journal Title

      J. Chem. Inf. Model. 47

      Pages: 1702-1712

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Comprehensive analysis of distinctive polyketide and nonribosomal peptide structural motifs encoded in microbial genomes.2007

    • Author(s)
      Minowa, Y., Araki, M., Kanehisa, M.
    • Journal Title

      J. Mol. Biol. 368

      Pages: 1500-1517

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Prediction of missing enzyme genes in bacterial metabolic network: a reconstruction of lysine degradation pathway of Pseudomonas aeruginosa.2007

    • Author(s)
      Yamanishi, Y., Mihara, H., Osaki, M., Muramatsu, H., Esaki, N., Sato, T., Hizukuri, Y., Goto, S., Kanehisa, M.
    • Journal Title

      FEBS J. 274

      Pages: 2262-2273

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Prediction of nitrogen metabolism-related genes in Anabaena by kernel-based network analysis.2007

    • Author(s)
      Okamoto, S., Yamanishi, Y., Ehira, S., Kawashima, S., Tonomura, K., Kanehisa, M.
    • Journal Title

      Proteomics 7

      Pages: 900-909

    • Related Report
      2009 Final Research Report 2006 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Comprehensive analysis of distinctive polyketide and nonribosomal peptide structural motifs encoded in microbial genomes.2007

    • Author(s)
      Minowa, Y., Araki, M., and Kanehisa, M.
    • Journal Title

      J. Mol. Biol. 368

      Pages: 1500-1517

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Systematic analysis of enzyme-catalyzed reaction patterns and prediction of microbial biodegradation pathways.2007

    • Author(s)
      Oh, M., Yamada, T., Hattori, M., Goto, S., and Kanehisa, M.
    • Journal Title

      J. Chem. Inf. Model. 47

      Pages: 1702-1712

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] KAAS: an automatic genome annotation and pathway reconstruction server.2007

    • Author(s)
      Moriya, Y., Itoh, M., Okuda, S., Yoshizawa, A., and Kanehisa, M.
    • Journal Title

      Nucleic Acids Res. 35

      Pages: 182-185

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Mining prokaryotic genomes for unknown amino acids: a stop-codon-based approach.2007

    • Author(s)
      Fujita, M., Mihara, H., Goto, S., Esaki, N., and Kanehisa, M.
    • Journal Title

      BMC Bioinformatics 8

      Pages: 225-225

    • NAID

      120004770237

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Evolutionary history and functional implications of protein domains and their combinations in eukaryotes.2007

    • Author(s)
      Itoh, M., Nacher, J.C., Kuma, K.I., Goto, S., and Kanehisa, M.
    • Journal Title

      Genome Biol. 8

      Pages: 121-121

    • NAID

      120004770238

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] The commonality of protein interaction networks determined in Neurodegenerative disordets (NDDS).2007

    • Author(s)
      Limviphuvadh, V., Tanaka, S., Goto, S., Ueda, K., and Kanehisa, M.
    • Journal Title

      Bioinformatics 23

      Pages: 2129-2138

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Identification of endocrine disruptor biodegradation by integration of structure-activity relationship with pathway analysis. Environ.2007

    • Author(s)
      Kadowaki, T., Wheelock, C.E., Adachi, T., Kudo, T., Okamoto, S., Tanaka, N., Tonomura, K., Tsujimoto, G., Mamitsuka, H., Goto, S., and Kanehisa, M.
    • Journal Title

      Sci. Technol. 41

      Pages: 7997-8003

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Systematic analysis of enzyme-catalyzed reaction patterns and prediction of microbial biodegradation pathways.2007

    • Author(s)
      Oh, M., Yamada, T., Hattori, M., Goto, S., Kanehisa, M.
    • Journal Title

      J.Chem.Inf.Model. (in Press)

    • Related Report
      2006 Annual Research Report
  • [Journal Article] Comprehensive analysis of distinctive polyketide and nonribosomal peptide structural motifs encoded in microbial genomes.2007

    • Author(s)
      Minowa, Y., Araki, M., Kanehisa, M.
    • Journal Title

      J.Mol.Biol. (in Press)

    • Related Report
      2006 Annual Research Report
  • [Journal Article] Extracting sequence motifs and the phylogenetic features of SNARE-dependent membrane traffic.2006

    • Author(s)
      Yoshizawa, A.C., Kawashima, S., Okuda, S., Fujita, M., Itoh, M., Moriya, Y., Hattori, M., Kanehisa, M.
    • Journal Title

      Traffic 7

      Pages: 1104-1118

    • Related Report
      2009 Final Research Report 2006 Annual Research Report
    • Peer Reviewed
  • [Journal Article] EGassembler: online bioinformatics service for large-scale processing, clustering and assembling ESTs and genomic DNA fragments.2006

    • Author(s)
      Masoudi-Nejad, A., Tonomura, K., Kawashima, S., Moriya, Y., Suzuki, M., Itoh, M., Kanehisa, M., Endo, T., Goto, S.
    • Journal Title

      Nucleic Acids Res. 34

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] KEGG as a glycome informatics resource.2006

    • Author(s)
      Hashimoto, K., Goto, S., Kawano, S., Aoki-Kinoshita, K.F., Ueda, N., Hamajima, M., Kawasaki, T., Kanehisa, M.
    • Journal Title

      Glycobiology 16

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Quantitative elementary mode analysis of metabolic pathways: the example of yeast glycolysis.2006

    • Author(s)
      Schwartz, J.M., Kanehisa, M.
    • Journal Title

      BMC Bioinformatics 7

      Pages: 186-186

    • NAID

      120004770253

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Extraction of phylogenetic network modules from the metabolic network.2006

    • Author(s)
      Yamada, T., Kanehisa, M., Goto, S.
    • Journal Title

      BMC Bioinformatics 7

      Pages: 130-130

    • NAID

      120004770316

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] From genomics to chemical genomics: new developments in KEGG.2006

    • Author(s)
      Kanehisa, M., Goto, S., Hattori, M., Aoki-Kinoshita, K.F., Itoh, M., Kawashima, S., Katayama, T., Araki, M., Hirakawa, M.
    • Journal Title

      Nucleic Acids Res. 34

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] EGassembler : online bioinformatics service for large-scale processing, clustering and assembling ESTs and genomic DNA fragments.2006

    • Author(s)
      Masoudi-Nejad, A., Tonomura, K., Kawashima, S., Moriya, Y., Suzuki, M., Itoh, M., Kanehisa, M., Endo, T., Colo, S.
    • Journal Title

      Nucleic Acids Res. 34

    • Related Report
      2006 Annual Research Report
  • [Journal Article] Quantitative elementary mode analysis of metabolic pathways : the example of yeast glycolysis.2006

    • Author(s)
      Schwartz, J.M., Kanehisa, M.
    • Journal Title

      BMC Bioinformatics 7

      Pages: 186-186

    • NAID

      120004770253

    • Related Report
      2006 Annual Research Report
  • [Journal Article] KEGG as a glycome informatics resource.2006

    • Author(s)
      Hashimoto, K., Goto, S., Kawano, S., Aoki-Kinoshita, K.F., Ueda, N., Hamajima, M., Kawasaki, T., Kanehisa, M.
    • Journal Title

      Glycobiology (in press)

    • Related Report
      2005 Annual Research Report
  • [Journal Article] From genomics to chemical genomics : new developments in KEGG2006

    • Author(s)
      Kanehisa, M., Goto, S., Hattori, M., Aoki-Kinoshita, K.F., Itoh, M., Kawashima, S., Katayama, T., Araki, M., Hirakawa, M.
    • Journal Title

      Nucleic Acids Research 34(Database issue)

    • Related Report
      2005 Annual Research Report
  • [Journal Article] EGassembler : online bioinformatics service for large-scale processing, clustering and assembling ESTs and genomic DNA fragments.2006

    • Author(s)
      Masoudi-Nejad, A., Tonomura, K., Kawashima, S., Moriya, Y., Suzuki, M., Itoh, M., Kanehisa, M., Endo, T., Goto, S.
    • Journal Title

      Nucleic Acids Research 34(in press)

    • Related Report
      2005 Annual Research Report
  • [Journal Article] A quadratic programming approach for decomposing steady-state metabolic flux distributions onto elementary modes.2005

    • Author(s)
      Schwartz, J.M., Kanehisa, M.
    • Journal Title

      Bioinformatics 21

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Prediction of glycan structures from gene expression data based on glycosyltransferase reactions.2005

    • Author(s)
      Kawano, S., Hashimoto, K., Miyama, T., Goto, S., Kanehisa, M.
    • Journal Title

      Bioinformatics 21

      Pages: 3976-3982

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Extraction of leukemia specific glycan motifs in human by computational glycomics.2005

    • Author(s)
      Hizukuri, Y., Yamanishi, Y., Nakamura, O., Yagi, F., Goto, S., Kanehisa, M.
    • Journal Title

      Carbohydr. Res. 340

      Pages: 2270-2278

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Extraction of leukemia specific glycan motifs in human by computational glycomics.2005

    • Author(s)
      Hizukuri, Y., Yamanishi, Y., Nakamura, O., Yagi, F., Goto, S., Kanehisa, M.
    • Journal Title

      Carbohydrate Research 340(14)

      Pages: 2270-2278

    • Related Report
      2005 Annual Research Report
  • [Journal Article] Prediction of glycan structures from gene expression data based on glycosyltransferase reactions.2005

    • Author(s)
      Kawano, S., Hashimoto, K., Miyama, T., Goto, S., Kanehisa, M.
    • Journal Title

      Bioinformatics 21(21)

      Pages: 3976-3982

    • Related Report
      2005 Annual Research Report
  • [Journal Article] A global representation of the carbohydrate structures : a tool for the analysis of glycan.2005

    • Author(s)
      Hashimoto, K., Kawano, S., Goto, S., Aoki-Kinoshita, K., Kawashima, M., Kanehisa, M.
    • Journal Title

      Genome Informatics 16(1)

      Pages: 214-222

    • Related Report
      2005 Annual Research Report
  • [Presentation] From metagenomes to pathways and diseases.2010

    • Author(s)
      Kanehisa, M.
    • Organizer
      First International Conference on Human Metagenomics
    • Place of Presentation
      Shenzhen, China
    • Year and Date
      2010-03-03
    • Related Report
      2009 Final Research Report
  • [Presentation] Comprehensive analysis of polyketide synthase families.2009

    • Author(s)
      Shimizu, Y., Kotera, M., Tokimatsu, T., Hattori, M., Goto, S., Kanehisa, M.
    • Organizer
      The 20th International Conference on Genome Informatics
    • Place of Presentation
      横浜
    • Year and Date
      2009-12-15
    • Related Report
      2009 Annual Research Report
  • [Presentation] Analysis of plant UGT family sequences and substrate specificity.2009

    • Author(s)
      Nishimura, Y., Tokimatsu, T., Kotera, M., Goto, S., Kanehisa, M.
    • Organizer
      The 20th International Conference on Genome Informatics
    • Place of Presentation
      横浜
    • Year and Date
      2009-12-15
    • Related Report
      2009 Annual Research Report
  • [Presentation] Reclassification of oxidoreductase subclasses based on the relationships of reductants and oxidants.2009

    • Author(s)
      Kotera, M., Tokimatsu, T., Nakagawa, Z., Moriya, Y., Hattori, M., Goto, S., Kanehisa, M.
    • Organizer
      The 20th International Conference on Genome Informatics
    • Place of Presentation
      横浜
    • Year and Date
      2009-12-15
    • Related Report
      2009 Annual Research Report
  • [Presentation] Extracting common substructures of GPCR ligands.2009

    • Author(s)
      Erguner, B., Hattori, M., Goto, S., Kanehisa, M.
    • Organizer
      The 20th International Conference on Genome Informatics
    • Place of Presentation
      横浜
    • Year and Date
      2009-12-15
    • Related Report
      2009 Annual Research Report
  • [Presentation] Structural clustering of plant secondary metabolite to estimate compound classes reflecting their biosynthetic pathway.2009

    • Author(s)
      Tokimatsu, T., Kotera, M., Goto, S., Kanaya, S., Kanehisa, M.
    • Organizer
      The 20th International Conference on Genome Informatics
    • Place of Presentation
      横浜
    • Year and Date
      2009-12-14
    • Related Report
      2009 Annual Research Report
  • [Presentation] Chemical continuity of reaction centers along successive metabolic reactions.2009

    • Author(s)
      Hattori, M., Kotera, M., Muto, A., Goto, S., Kanehisa, M.
    • Organizer
      The 20th International Conference on Genome Informatics
    • Place of Presentation
      横浜
    • Year and Date
      2009-12-14
    • Related Report
      2009 Annual Research Report
  • [Presentation] Structural similarity-based approach to characterize crude drug components.2009

    • Author(s)
      tuto, A., Kanehisa, M.
    • Organizer
      The 20th International Conference on Genome Informatics
    • Place of Presentation
      横浜
    • Year and Date
      2009-12-14
    • Related Report
      2009 Annual Research Report
  • [Presentation] Extremely Short 5' Untranslated Region in Entamoeba genes2009

    • Author(s)
      平糠和志
    • Organizer
      The 2008 Annual Conference of the Japanese Society for Bioinformatics
    • Place of Presentation
      大阪
    • Related Report
      2008 Annual Research Report
  • [Presentation] 未知の酵素反応予測に向けた一般化反応パターンの開発2008

    • Author(s)
      清水祐吾
    • Organizer
      BMB2008(第31回分子生物学会年会・第81回日本生化学会大)
    • Place of Presentation
      神戸
    • Year and Date
      2008-12-12
    • Related Report
      2008 Annual Research Report
  • [Presentation] 医薬品添付卒書に基づく薬物相互作用の網羅的解析2008

    • Author(s)
      財部将孝
    • Organizer
      BMB2008(第31回分子生物学会年会・第81回日本生化学会大
    • Place of Presentation
      神戸
    • Year and Date
      2008-12-12
    • Related Report
      2008 Annual Research Report
  • [Presentation] The global picture of glycosyltransferase families in eukarvotes2008

    • Author(s)
      Kosuke Hashimoto
    • Organizer
      Annual Meeting of the Society for Glycobiology
    • Place of Presentation
      Dallas, TX, USA
    • Year and Date
      2008-11-13
    • Related Report
      2008 Annual Research Report
  • [Presentation] A Web-based Prediction Tool for N-Glycan Structures2008

    • Author(s)
      Akitsugu Suga
    • Organizer
      Annual Meeting of the Society for Glycobiology
    • Place of Presentation
      Dallas, TX, USA
    • Year and Date
      2008-11-13
    • Related Report
      2008 Annual Research Report
  • [Presentation] Mining significant tree patterns in carbohydrate sugar chains2008

    • Author(s)
      Kosuke Hashimoto
    • Organizer
      European Conference on Computational Biology Sardinia
    • Place of Presentation
      Sardinia, Italy
    • Year and Date
      2008-09-25
    • Related Report
      2008 Annual Research Report
  • [Presentation] Analysis of Common Substructures of Metabolic Compounds within the Different Organism Groups.2008

    • Author(s)
      Ai Muto
    • Organizer
      The Seventh Annual International Workshop on Bioinformatics and Systems Biology 2007
    • Place of Presentation
      Tokyo
    • Year and Date
      2008-08-03
    • Related Report
      2007 Annual Research Report
  • [Presentation] An Improved Scoring Scheme for Predicting Glycan Structures from Gene Expression Data.2008

    • Author(s)
      Akitsugu Suga
    • Organizer
      The Seventh Annual International Workshop on Bioinformatics and Systems Biology 2007
    • Place of Presentation
      Tokyo
    • Year and Date
      2008-08-02
    • Related Report
      2007 Annual Research Report
  • [Presentation] Network analysis of adverse drug interactions2008

    • Author(s)
      Masataka Takarabe
    • Organizer
      8th International Workshop on Bioinformatics and Systems Biology 2008
    • Place of Presentation
      Berlin, Germany
    • Year and Date
      2008-06-11
    • Related Report
      2008 Annual Research Report
  • [Presentation] Generalized Reaction Patterns for Prediction of Unknown Enzymatic Reactions2008

    • Author(s)
      Yugo Shimizu
    • Organizer
      〓th International Workshop on Bioinformatics and System Biology 2008
    • Place of Presentation
      Berlin, Germany
    • Year and Date
      2008-06-09
    • Related Report
      2008 Annual Research Report
  • [Presentation] Comprehensive analysis of sulfur transferases related to the synthesis of moco and 2-thiouridine2008

    • Author(s)
      小林武史
    • Organizer
      The 2008 Annual Conference of the Japanese Society for Bioinformatics
    • Place of Presentation
      大阪
    • Related Report
      2008 Annual Research Report
  • [Presentation] Co-occurrence Analysis in Differentially Expressed Genes in Adenoma Using Frequent Itemset Mining2008

    • Author(s)
      水谷紗弥佳
    • Organizer
      The 2008 Annual Conference of the Japanese Society for Bioinformatics
    • Place of Presentation
      大阪
    • Related Report
      2008 Annual Research Report
  • [Presentation] Analysis of Tissue Specific Expression Patterns of Metabolic Pathway.2008

    • Author(s)
      Masataka Takarabe
    • Organizer
      The Seventh Annual International Workshop on Bioinformatics and Systems Biology 2007
    • Place of Presentation
      Tokyo
    • Related Report
      2007 Annual Research Report
  • [Presentation] Analysis of the Relationship between EC Classification and Reaction Representations in KEGG RPAIR Database.2008

    • Author(s)
      Yugo Shimizu
    • Organizer
      The Seventh Annual International Workshop on Bioinformatics and Systems Biology2007
    • Place of Presentation
      Tokyo
    • Related Report
      2007 Annual Research Report
  • [Presentation] Comprehensive Analysis of Enzymatic Reaction Mechanisms Based on the EC Classification and KEGG RPAIR Database.2007

    • Author(s)
      Yugo Shimizu
    • Organizer
      The 2007 Annual Conference of Japanese Society for Biomformatics
    • Place of Presentation
      Tokyo
    • Year and Date
      2007-12-17
    • Related Report
      2007 Annual Research Report
  • [Presentation] KEGG as a glycome informatics resource2007

    • Author(s)
      Kosuke Hashimoto
    • Organizer
      Gordon Research Conferences: Glycobiology
    • Place of Presentation
      Ventura, California, USA
    • Related Report
      2007 Annual Research Report
  • [Presentation] Prediction of glycan structures form gene expression data based on improved scoring scheme.2007

    • Author(s)
      Akitsugu Suga
    • Organizer
      Gordon Research Conferences: Glycobiology
    • Place of Presentation
      Ventura, California, USA
    • Related Report
      2007 Annual Research Report
  • [Presentation] KEGG DRUG structure mapから化学変換パターンの抽出2007

    • Author(s)
      重水 大智
    • Organizer
      第30回分子生物学会年会・第80回日本生化学会大会
    • Place of Presentation
      横浜
    • Related Report
      2007 Annual Research Report
  • [Presentation] パラログ遺伝子による代謝反応の基質多様性の解析2007

    • Author(s)
      田中 道廣
    • Organizer
      第30回分子生物学会年会・第80回日本生化学会大会
    • Place of Presentation
      横浜
    • Related Report
      2007 Annual Research Report
  • [Presentation] DesaturaseとElongaseの網羅的探索及びその組合せによる脂肪酸予測2007

    • Author(s)
      橋本 浩介
    • Organizer
      第30回分子生物学会年会・第80回日本生化学会大会
    • Place of Presentation
      横浜
    • Related Report
      2007 Annual Research Report
  • [Book] Knowledge based analysis of protein interaction networks in neurodegenerative diseases. In "Neuroproteomics" (Alzate, O., ed. )2009

    • Author(s)
      Kanehisa, M., Limviphuvadh, V., Tanabe, M.
    • Publisher
      CRC Press
    • Related Report
      2009 Final Research Report
  • [Book] 生化学2008

    • Author(s)
      本渉、田辺麻央、矢野亜津子、金久實
    • Publisher
      バイオインフォマティクス・システムバイオロジーとKEGG
    • Related Report
      2008 Annual Research Report
  • [Book] 蛋白質核酸酵素2008

    • Author(s)
      橋本浩介、五斗進、金久實
    • Publisher
      KEGG GLYCANデータベースと糖鎖インフォマティクス
    • Related Report
      2008 Annual Research Report
  • [Book] 実験医学2008

    • Author(s)
      橋本浩介、五斗進、金久實
    • Publisher
      KEGG : 生命システム情報統合データベース
    • Related Report
      2008 Annual Research Report
  • [Remarks] Thompson社ScienceWatchのEmerging Research Frontsにインタビュー記事(2008年2月)

    • Related Report
      2009 Final Research Report
  • [Remarks] GenomeWeb社のBioInformにインタビュー記事(2008年1月)

    • Related Report
      2009 Final Research Report
  • [Remarks] Thompson社Fast Breaking Paperに採択されインタビュー記事(2007年2月)

    • Related Report
      2009 Final Research Report
  • [Remarks] KEGGデータベース

    • URL

      http://www.genome.jp/kegg/

    • Related Report
      2009 Final Research Report
  • [Remarks] KEGGデータベース

    • URL

      http://www.genome.jp/kegg/

    • Related Report
      2009 Annual Research Report
  • [Remarks] KEGGデータベース

    • URL

      http://www.genome.jp/kegg/

    • Related Report
      2008 Annual Research Report
  • [Remarks] KEGGデーターベス

    • URL

      http://www.genome.jp/kegg/

    • Related Report
      2007 Annual Research Report

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Published: 2005-04-01   Modified: 2018-03-28  

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