Backbone Database for Understanding the Biological Systems

• Project/Area Number: 17020005
• Research Category: Grant-in-Aid for Scientific Research on Priority Areas
• Allocation Type: Single-year Grants
• Review Section: Biological Sciences
• Research Institution: Kyoto 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: ¥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.

Research Products

• [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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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., and Kanehisa, M
  • Journal Title: J. Chem. Inf. Model (in press)
  • 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., and Kaehisa, M
  • Journal Title: Carbohydr. Res (in press)
  • Peer Reviewed
• [Journal Article] E-zyme : predicting potential EC numbers from the chemical transformation pattern of substrate-product (2009)
  • Author(s): Yamanishi, Y., Hattori, M., Kotera, M., Goto, S., and
  • Journal Title: Bioinformatics (in press)
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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. and Kanehisa, M.
  • Journal Title: Mol. Biol. Evol 25 Pages: 1395-1404
  • 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. and Kanehisa, M
  • Journal Title: Nucleic Acids Res 36
  • 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., and
  • Journal Title: Bioinformatics 24
  • Peer Reviewed
• [Journal Article] Mining significant tree patterns in carbohydrate sugar chains (2008)
  • Author(s): Hashimoto, K., Takigawa, I., Shiga, M., Kanehisa, M., and
  • Journal Title: Bioinformatics 24
  • Peer Reviewed
• [Journal Article] Network analysis of adverse drug interactions (2008)
  • Author(s): Takarabe, M., Okuda, S., Itoh, M., Tokimatsu, T., Goto, S., and Kariphisa, M
  • Journal Title: Genome Informatics 20 Pages: 252-259
  • Peer Reviewed
• [Journal Article] Generalized reaction patterns for prediction of unknown enzymatic reactions (2008)
  • Author(s): Shimizu, Y., Hattori, M., Goto, S., and Kanehisa. M
  • Journal Title: Genome Informatics 20 Pages: 149-158
  • NAID: 130003997519
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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)
• [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)
• [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
  • 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
  • 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
  • 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
  • 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
  • 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
  • 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
• [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
• [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)
• [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 Research 34(Database issue)
• [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)
• [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
  • 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
  • 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
  • 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
• [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
• [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
• [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
• [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
• [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
• [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
• [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
• [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
• [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
• [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
• [Presentation] Extremely Short 5' Untranslated Region in Entamoeba genes (2009)
  • Author(s): 平糠和志
  • Organizer: The 2008 Annual Conference of the Japanese Society for Bioinformatics
  • Place of Presentation: 大阪
• [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
• [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
• [Presentation] The global picture of glycosyltransferase families in eukarvotes (2008)
  • Author(s): Kosuke Hashimoto
  • Organizer: Annual Meeting of the Society for Glycobiology
  • Place of Presentation: Dallas, TX, USA
  • Year and Date: 2008-11-13
• [Presentation] A Web-based Prediction Tool for N-Glycan Structures (2008)
  • Author(s): Akitsugu Suga
  • Organizer: Annual Meeting of the Society for Glycobiology
  • Place of Presentation: Dallas, TX, USA
  • Year and Date: 2008-11-13
• [Presentation] Mining significant tree patterns in carbohydrate sugar chains (2008)
  • Author(s): Kosuke Hashimoto
  • Organizer: European Conference on Computational Biology Sardinia
  • Place of Presentation: Sardinia, Italy
  • Year and Date: 2008-09-25
• [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
• [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
• [Presentation] Network analysis of adverse drug interactions (2008)
  • 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
• [Presentation] Generalized Reaction Patterns for Prediction of Unknown Enzymatic Reactions (2008)
  • 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
• [Presentation] Comprehensive analysis of sulfur transferases related to the synthesis of moco and 2-thiouridine (2008)
  • Author(s): 小林武史
  • Organizer: The 2008 Annual Conference of the Japanese Society for Bioinformatics
  • Place of Presentation: 大阪
• [Presentation] Co-occurrence Analysis in Differentially Expressed Genes in Adenoma Using Frequent Itemset Mining (2008)
  • Author(s): 水谷紗弥佳
  • Organizer: The 2008 Annual Conference of the Japanese Society for Bioinformatics
  • Place of Presentation: 大阪
• [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
• [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
• [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
• [Presentation] KEGG as a glycome informatics resource (2007)
  • Author(s): Kosuke Hashimoto
  • Organizer: Gordon Research Conferences: Glycobiology
  • Place of Presentation: Ventura, California, USA
• [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
• [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
• [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
• [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
• [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
• [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
• [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
• [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
• [Remarks] Thompson社ScienceWatchのEmerging Research Frontsにインタビュー記事(2008年2月)
• [Remarks] GenomeWeb社のBioInformにインタビュー記事(2008年1月)
• [Remarks] Thompson社Fast Breaking Paperに採択されインタビュー記事(2007年2月)
• [Remarks] KEGGデータベース
  • URL: http://www.genome.jp/kegg/
• [Remarks] KEGGデータベース
  • URL: http://www.genome.jp/kegg/
• [Remarks] KEGGデータベース
  • URL: http://www.genome.jp/kegg/
• [Remarks] KEGGデーターベス
  • URL: http://www.genome.jp/kegg/