Minoru Kanehisa

Publication Activity (10 Years)

Years Active: 1984-2023
Publications (10 Years): 7

Top Topics

Metabolic Pathways

Automatic Construction

Modular Architecture

Top Venues

Nucleic Acids Res.

J. Chem. Inf. Model.

BMC Syst. Biol.

Publications

Minoru Kanehisa, Miho Furumichi, Yoko Sato, Masayuki Kawashima, Mari Ishiguro-Watanabe
KEGG for taxonomy-based analysis of pathways and genomes. Nucleic Acids Res. 51 (D1) (2023)
Minoru Kanehisa, Miho Furumichi, Yoko Sato, Mari Ishiguro-Watanabe, Mao Tanabe
KEGG: integrating viruses and cellular organisms. Nucleic Acids Res. 49 (Database-Issue) (2021)
Takuya Aramaki, Romain Blanc-Mathieu, Hisashi Endo, Koichi Ohkubo, Minoru Kanehisa, Susumu Goto, Hiroyuki Ogata
KofamKOALA: KEGG Ortholog assignment based on profile HMM and adaptive score threshold. Bioinform. 36 (7) (2020)
Minoru Kanehisa, Yoko Sato, Miho Furumichi, Kanae Morishima, Mao Tanabe
New approach for understanding genome variations in KEGG. Nucleic Acids Res. 47 (Database-Issue) (2019)
Minoru Kanehisa, Miho Furumichi, Mao Tanabe, Yoko Sato, Kanae Morishima
KEGG: new perspectives on genomes, pathways, diseases and drugs. Nucleic Acids Res. 45 (Database-Issue) (2017)
Minoru Kanehisa, Yoko Sato, Masayuki Kawashima, Miho Furumichi, Mao Tanabe
KEGG as a reference resource for gene and protein annotation. Nucleic Acids Res. 44 (Database-Issue) (2016)
Yuki Moriya, Takuji Yamada, Shujiro Okuda, Zenichi Nakagawa, Masaaki Kotera, Toshiaki Tokimatsu, Minoru Kanehisa, Susumu Goto
Identification of Enzyme Genes Using Chemical Structure Alignments of Substrate-Product Pairs. J. Chem. Inf. Model. 56 (3) (2016)
Minoru Kanehisa, Susumu Goto, Yoko Sato, Masayuki Kawashima, Miho Furumichi, Mao Tanabe
Data, information, knowledge and principle: back to metabolism in KEGG. Nucleic Acids Res. 42 (Database-Issue) (2014)
Masaaki Kotera, Yosuke Nishimura, Zenichi Nakagawa, Ai Muto, Yuki Moriya, Shinobu Okamoto, Shuichi Kawashima, Toshiaki Katayama, Toshiaki Tokimatsu, Minoru Kanehisa, Susumu Goto
PIERO ontology for analysis of biochemical transformations: Effective implementation of reaction information in the IUBMB enzyme list. J. Bioinform. Comput. Biol. 12 (6) (2014)
Yoshihiro Yamanishi, Masaaki Kotera, Yuki Moriya, Ryusuke Sawada, Minoru Kanehisa, Susumu Goto
DINIES: drug-target interaction network inference engine based on supervised analysis. Nucleic Acids Res. 42 (Webserver-Issue) (2014)
Masaaki Kotera, Yasuo Tabei, Yoshihiro Yamanishi, Yuki Moriya, Toshiaki Tokimatsu, Minoru Kanehisa, Susumu Goto
KCF-S: KEGG Chemical Function and Substructure for improved interpretability and prediction in chemical bioinformatics. BMC Syst. Biol. 7 (S-6) (2013)
Minoru Kanehisa
Automated interpretation of metabolic capacity from genome and metagenome sequences. Quant. Biol. 1 (3) (2013)
Ai Muto, Masaaki Kotera, Toshiaki Tokimatsu, Zenichi Nakagawa, Susumu Goto, Minoru Kanehisa
Modular Architecture of Metabolic Pathways Revealed by Conserved Sequences of Reactions. J. Chem. Inf. Model. 53 (3) (2013)
Akihiro Nakaya, Toshiaki Katayama, Masumi Itoh, Kazushi Hiranuka, Shuichi Kawashima, Yuki Moriya, Shujiro Okuda, Michihiro Tanaka, Toshiaki Tokimatsu, Yoshihiro Yamanishi, Akiyasu C. Yoshizawa, Minoru Kanehisa, Susumu Goto
KEGG OC: a large-scale automatic construction of taxonomy-based ortholog clusters. Nucleic Acids Res. 41 (Database-Issue) (2013)
Ritsuko Onuki, Ryo Yamada, Rui Yamaguchi, Minoru Kanehisa, Tetsuo Shibuya
Population Model-Based Inter-Diplotype Similarity Measure for Accurate Diplotype Clustering. J. Comput. Biol. 19 (1) (2012)
Minoru Kanehisa, Susumu Goto, Yoko Sato, Miho Furumichi, Mao Tanabe
KEGG for integration and interpretation of large-scale molecular data sets. Nucleic Acids Res. 40 (Database-Issue) (2012)
Masaaki Kotera, Yoshihiro Yamanishi, Yuki Moriya, Minoru Kanehisa, Susumu Goto
GENIES: gene network inference engine based on supervised analysis. Nucleic Acids Res. 40 (Web-Server-Issue) (2012)
Nozomu Sakurai, Takeshi Ara, Yoshiyuki Ogata, Ryosuke Sano, Takashi Ohno, Kenjiro Sugiyama, Atsushi Hiruta, Kiyoshi Yamazaki, Kentaro Yano, Koh Aoki, Asaph Aharoni, Kazuki Hamada, Koji Yokoyama, Shingo Kawamura, Hirofumi Otsuka, Toshiaki Tokimatsu, Minoru Kanehisa, Hideyuki Suzuki, Kazuki Saito, Daisuke Shibata
KaPPA-View4: a metabolic pathway database for representation and analysis of correlation networks of gene co-expression and metabolite co-accumulation and omics data. Nucleic Acids Res. 39 (Database-Issue) (2011)
Takuji Yamada, Ivica Letunic, Shujiro Okuda, Minoru Kanehisa, Peer Bork
iPath2.0: interactive pathway explorer. Nucleic Acids Res. 39 (Web-Server-Issue) (2011)
Masataka Takarabe, Daichi Shigemizu, Masaaki Kotera, Susumu Goto, Minoru Kanehisa
Network-Based Analysis and Characterization of Adverse Drug-Drug Interactions. J. Chem. Inf. Model. 51 (11) (2011)
Masaaki Kotera, Toshiaki Tokimatsu, Minoru Kanehisa, Susumu Goto
MUCHA: multiple chemical alignment algorithm to identify building block substructures of orphan secondary metabolites. BMC Bioinform. 12 (S-14) (2011)
Minoru Kanehisa, Susumu Goto, Miho Furumichi, Mao Tanabe, Mika Hirakawa
KEGG for representation and analysis of molecular networks involving diseases and drugs. Nucleic Acids Res. 38 (Database-Issue) (2010)
Yoshihiro Yamanishi, Masaaki Kotera, Minoru Kanehisa, Susumu Goto
Drug-target interaction prediction from chemical, genomic and pharmacological data in an integrated framework. Bioinform. 26 (12) (2010)
Yuki Moriya, Daichi Shigemizu, Masahiro Hattori, Toshiaki Tokimatsu, Masaaki Kotera, Susumu Goto, Minoru Kanehisa
PathPred: an enzyme-catalyzed metabolic pathway prediction server. Nucleic Acids Res. 38 (Web-Server-Issue) (2010)
Masahiro Hattori, Nobuya Tanaka, Minoru Kanehisa, Susumu Goto
SIMCOMP/SUBCOMP: chemical structure search servers for network analyses. Nucleic Acids Res. 38 (Web-Server-Issue) (2010)
Yoshihiro Yamanishi, Masahiro Hattori, Masaaki Kotera, Susumu Goto, Minoru Kanehisa
E-zyme: predicting potential EC numbers from the chemical transformation pattern of substrate-product pairs. Bioinform. 25 (12) (2009)
Daichi Shigemizu, Michihiro Araki, Shujiro Okuda, Susumu Goto, Minoru Kanehisa
Extraction and Analysis of Chemical Modification Patterns in Drug Development. J. Chem. Inf. Model. 49 (4) (2009)
Minoru Kanehisa
KEGG for Medical and Pharmaceutical Applications. APBC (2008)
C. Nelson Hayes, Diego Diez, Nicolas Joannin, Wataru Honda, Minoru Kanehisa, Mats Wahlgren, Craig E. Wheelock, Susumu Goto
varDB: a pathogen-specific sequence database of protein families involved in antigenic variation. Bioinform. 24 (21) (2008)
Kosuke Hashimoto, Kiyoko F. Aoki-Kinoshita, Nobuhisa Ueda, Minoru Kanehisa, Hiroshi Mamitsuka
A new efficient probabilistic model for mining labeled ordered trees applied to glycobiology. ACM Trans. Knowl. Discov. Data 2 (1) (2008)
Kosuke Hashimoto, Ichigaku Takigawa, Motoki Shiga, Minoru Kanehisa, Hiroshi Mamitsuka
Mining significant tree patterns in carbohydrate sugar chains. ECCB (2008)
Minoru Kanehisa, Michihiro Araki, Susumu Goto, Masahiro Hattori, Mika Hirakawa, Masumi Itoh, Toshiaki Katayama, Shuichi Kawashima, Shujiro Okuda, Toshiaki Tokimatsu, Yoshihiro Yamanishi
KEGG for linking genomes to life and the environment. Nucleic Acids Res. 36 (Database-Issue) (2008)
Yoshihiro Yamanishi, Michihiro Araki, Alex Gutteridge, Wataru Honda, Minoru Kanehisa
Prediction of drug-target interaction networks from the integration of chemical and genomic spaces. ISMB (2008)
Shujiro Okuda, Takuji Yamada, Masami Hamajima, Masumi Itoh, Toshiaki Katayama, Peer Bork, Susumu Goto, Minoru Kanehisa
KEGG Atlas mapping for global analysis of metabolic pathways. Nucleic Acids Res. 36 (Web-Server-Issue) (2008)
Shuichi Kawashima, Piotr Pokarowski, Maria Pokarowska, Andrzej Kolinski, Toshiaki Katayama, Minoru Kanehisa
AAindex: amino acid index database, progress report 2008. Nucleic Acids Res. 36 (Database-Issue) (2008)
Tetsuya Sato, Yoshihiro Yamanishi, Katsuhisa Horimoto, Minoru Kanehisa, Hiroyuki Toh
Inference of Protein-Protein Interactions by Using Co-evolutionary Information. AB (2007)
Vachiranee Limviphuvadh, Seigo Tanaka, Susumu Goto, Kunihiro Ueda, Minoru Kanehisa
The commonality of protein interaction networks determined in neurodegenerative disorders (NDDs). Bioinform. 23 (16) (2007)
Zhenjun Hu, David M. Ng, Takuji Yamada, Chunnuan Chen, Shuichi Kawashima, Joe Mellor, Bolan Linghu, Minoru Kanehisa, Joshua M. Stuart, Charles DeLisi
VisANT 3.0: new modules for pathway visualization, editing, prediction and construction. Nucleic Acids Res. 35 (Web-Server-Issue) (2007)
Mina Oh, Takuji Yamada, Masahiro Hattori, Susumu Goto, Minoru Kanehisa
Systematic Analysis of Enzyme-Catalyzed Reaction Patterns and Prediction of Microbial Biodegradation Pathways. J. Chem. Inf. Model. 47 (4) (2007)
Alex Gutteridge, Minoru Kanehisa, Susumu Goto
Regulation of metabolic networks by small molecule metabolites. BMC Bioinform. 8 (2007)
Masashi Fujita, Hisaaki Mihara, Susumu Goto, Nobuyoshi Esaki, Minoru Kanehisa
Mining prokaryotic genomes for unknown amino acids: a stop-codon-based approach. BMC Bioinform. 8 (2007)
Yuki Moriya, Masumi Itoh, Shujiro Okuda, Akiyasu C. Yoshizawa, Minoru Kanehisa
KAAS: an automatic genome annotation and pathway reconstruction server. Nucleic Acids Res. 35 (Web-Server-Issue) (2007)
Kosuke Hashimoto, Kiyoko F. Aoki-Kinoshita, Nobuhisa Ueda, Minoru Kanehisa, Hiroshi Mamitsuka
A new efficient probabilistic model for mining labeled ordered trees. KDD (2006)
Kiyoko F. Aoki-Kinoshita, Nobuhisa Ueda, Hiroshi Mamitsuka, Minoru Kanehisa
ProfilePSTMM: capturing tree-structure motifs in carbohydrate sugar chains. ISMB (Supplement of Bioinformatics) (2006)
Kiyoko F. Aoki-Kinoshita, Minoru Kanehisa, Ming-Yang Kao, Xiang-Yang Li, Weizhao Wang
A 6-Approximation Algorithm for Computing Smallest Common AoN-Supertree with Application to the Reconstruction of Glycan Trees. ISAAC (2006)
Jose C. Nacher, Jean-Marc Schwartz, Minoru Kanehisa, Tatsuya Akutsu
Identification of metabolic units induced by environmental signals. ISMB (Supplement of Bioinformatics) (2006)
Minoru Kanehisa, Susumu Goto, Masahiro Hattori, Kiyoko F. Aoki-Kinoshita, Masumi Itoh, Shuichi Kawashima, Toshiaki Katayama, Michihiro Araki, Mika Hirakawa
From genomics to chemical genomics: new developments in KEGG. Nucleic Acids Res. 34 (Database-Issue) (2006)
Jean-Marc Schwartz, Minoru Kanehisa
Quantitative elementary mode analysis of metabolic pathways: the example of yeast glycolysis. BMC Bioinform. 7 (2006)
Takuji Yamada, Minoru Kanehisa, Susumu Goto
Extraction of phylogenetic network modules from the metabolic network. BMC Bioinform. 7 (2006)
Shujiro Okuda, Toshiaki Katayama, Shuichi Kawashima, Susumu Goto, Minoru Kanehisa
ODB: a database of operons accumulating known operons across multiple genomes. Nucleic Acids Res. 34 (Database-Issue) (2006)
Tetsuya Sato, Yoshihiro Yamanishi, Katsuhisa Horimoto, Minoru Kanehisa, Hiroyuki Toh
Partial correlation coefficient between distance matrices as a new indicator of protein-protein interactions. Bioinform. 22 (20) (2006)
Jian Huang, Alex Gutteridge, Wataru Honda, Minoru Kanehisa
MIMOX: a web tool for phage display based epitope mapping. BMC Bioinform. 7 (2006)
Ali Masoudi-Nejad, Koichiro Tonomura, Shuichi Kawashima, Yuki Moriya, Masanori Suzuki, Masumi Itoh, Minoru Kanehisa, Takashi Endo, Susumu Goto
EGassembler: online bioinformatics service for large-scale processing, clustering and assembling ESTs and genomic DNA fragments. Nucleic Acids Res. 34 (Web-Server-Issue) (2006)
Kiyoko F. Aoki, Hiroshi Mamitsuka, Tatsuya Akutsu, Minoru Kanehisa
A score matrix to reveal the hidden links in glycans. Bioinform. 21 (8) (2005)
Yoshinori Tamada, Hideo Bannai, Seiya Imoto, Toshiaki Katayama, Minoru Kanehisa, Satoru Miyano
Utilizing Evolutionary Information and Gene Expression Data for Estimating Gene Networks with Bayesian Network Models. J. Bioinform. Comput. Biol. 3 (6) (2005)
Shin Kawano, Kosuke Hashimoto, Takashi Miyama, Susumu Goto, Minoru Kanehisa
Prediction of glycan structures from gene expression data based on glycosyltransferase reactions. Bioinform. 21 (21) (2005)
Tetsuya Sato, Yoshihiro Yamanishi, Minoru Kanehisa, Hiroyuki Toh
The inference of protein-protein interactions by co-evolutionary analysis is improved by excluding the information about the phylogenetic relationships. Bioinform. 21 (17) (2005)
Masumi Itoh, Susumu Goto, Tatsuya Akutsu, Minoru Kanehisa
Fast and accurate database homology search using upper bounds of local alignment scores. Bioinform. 21 (7) (2005)
Jean-Marc Schwartz, Minoru Kanehisa
A quadratic programming approach for decomposing steady-state metabolic flux distributions onto elementary modes. ECCB/JBI (2005)
Yoshihiro Yamanishi, Jean-Philippe Vert, Minoru Kanehisa
Supervised enzyme network inference from the integration of genomic data and chemical information. ISMB (Supplement of Bioinformatics) (2005)
Jose C. Nacher, Nobuhisa Ueda, Takuji Yamada, Minoru Kanehisa, Tatsuya Akutsu
Clustering under the line graph transformation: application to reaction network. BMC Bioinform. 5 (2004)
Kiyoko F. Aoki, Nobuhisa Ueda, Atsuko Yamaguchi, Minoru Kanehisa, Tatsuya Akutsu, Hiroshi Mamitsuka
Application of a new probabilistic model for recognizing complex patterns in glycans. ISMB/ECCB (Supplement of Bioinformatics) (2004)
Minoru Kanehisa, Susumu Goto, Shuichi Kawashima, Yasushi Okuno, Masahiro Hattori
The KEGG resource for deciphering the genome. Nucleic Acids Res. 32 (Database-Issue) (2004)
Kiyoko F. Aoki, Nobuhisa Ueda, Atsuko Yamaguchi, Tatsuya Akutsu, Minoru Kanehisa, Hiroshi Mamitsuka
Managing and Analyzing Carbohydrate Data. SIGMOD Rec. 33 (2) (2004)
Yoshihiro Yamanishi, Jean-Philippe Vert, Minoru Kanehisa
Protein network inference from multiple genomic data: a supervised approach. ISMB/ECCB (Supplement of Bioinformatics) (2004)
Kiyoko F. Aoki, Atsuko Yamaguchi, Nobuhisa Ueda, Tatsuya Akutsu, Hiroshi Mamitsuka, Susumu Goto, Minoru Kanehisa
KCaM (KEGG Carbohydrate Matcher): a software tool for analyzing the structures of carbohydrate sugar chains. Nucleic Acids Res. 32 (Web-Server-Issue) (2004)
Keun-Joon Park, Minoru Kanehisa
Prediction of protein subcellular locations by support vector machines using compositions of amino acids and amino acid pairs. Bioinform. 19 (13) (2003)
Jean-Philippe Vert, Minoru Kanehisa
Extracting active pathways from gene expression data. ECCB (2003)
Yoshihiro Yamanishi, Jean-Philippe Vert, Akihiro Nakaya, Minoru Kanehisa
Extraction of correlated gene clusters from multiple genomic data by generalized kernel canonical correlation analysis. ISMB (Supplement of Bioinformatics) (2003)
Minoru Kanehisa, Susumu Goto, Shuichi Kawashima, Akihiro Nakaya
The KEGG databases at GenomeNet. Nucleic Acids Res. 30 (1) (2002)
Susumu Goto, Yasushi Okuno, Masahiro Hattori, Takaaki Nishioka, Minoru Kanehisa
LIGAND: database of chemical compounds and reactions in biological pathways. Nucleic Acids Res. 30 (1) (2002)
Takeshi Kawashima, Shuichi Kawashima, Yuji Kohara, Minoru Kanehisa, Kazuhiro W. Makabe
Update of MAGEST: Maboya Gene Expression patterns and Sequence Tags. Nucleic Acids Res. 30 (1) (2002)
Jean-Philippe Vert, Minoru Kanehisa
Graph-Driven Feature Extraction From Microarray Data Using Diffusion Kernels and Kernel CCA. NIPS (2002)
Susumu Goto, Takaaki Nishioka, Minoru Kanehisa
LIGAND: chemical database of enzyme reactions. Nucleic Acids Res. 28 (1) (2000)
Minoru Kanehisa, Susumu Goto
KEGG: Kyoto Encyclopedia of Genes and Genomes. Nucleic Acids Res. 28 (1) (2000)
Shuichi Kawashima, Minoru Kanehisa
AAindex: Amino Acid index database. Nucleic Acids Res. 28 (1) (2000)
Takeshi Kawashima, Shuichi Kawashima, Minoru Kanehisa, Hiroki Nishida, Kazuhiro W. Makabe
MAGEST: MAboya Gene Expression patterns and Sequence Tags. Nucleic Acids Res. 28 (1) (2000)
Minoru Kanehisa
Sequence comparison to graph comparison--a new generation of algorithms for network analysis of interacting molecules (abstract only). RECOMB (2000)
Hiroyuki Ogata, Susumu Goto, Kazushige Sato, Wataru Fujibuchi, Hidemasa Bono, Minoru Kanehisa
KEGG: Kyoto Encyclopedia of Genes and Genomes. Nucleic Acids Res. 27 (1) (1999)
Susumu Goto, Takaaki Nishioka, Minoru Kanehisa
LIGAND database for enzymes, compounds and reactions. Nucleic Acids Res. 27 (1) (1999)
Shuichi Kawashima, Hiroyuki Ogata, Minoru Kanehisa
AAindex: Amino Acid Index Database. Nucleic Acids Res. 27 (1) (1999)
Susumu Goto, Takaaki Nishioka, Minoru Kanehisa
LIGAND: chemical database for enzyme reactions. Bioinform. 14 (7) (1998)
Takahiko Suzuki, Toshihisa Takagi, Satoru Kuhara, Minoru Kanehisa
Development of an integrated Database for Genome Mapping and Nucleotide Sequences. HICSS (5) (1994)
Yo Matsuo, Minoru Kanehisa
An approach to systematic detection of protein structural motifs. Comput. Appl. Biosci. 9 (2) (1993)
Masato Ishikawa, Tomoyuki Toya, Masaki Hoshida, Katsumi Nitta, A. Ogiwara, Minoru Kanehisa
Multiple sequence alignment by parallel simulated annealing. Comput. Appl. Biosci. 9 (3) (1993)
Kotoko Nakata, Minoru Kanehisa, Jacob V. Maizel
Discriminant analysis of promoter regions in Escherichia coli sequences. Comput. Appl. Biosci. 4 (3) (1988)
Christian Burks, James W. Fickett, W. B. Goad, Minoru Kanehisa, F. I. Lewitter, W. P. Rindone, C. D. Swindell, C. S. Tung, H. S. Bilofsky
The GenBank nucleic acid sequence database. Comput. Appl. Biosci. 1 (4) (1985)
Minoru Kanehisa, James W. Fickett, W. B. Goad
A relational database system for the maintenance and verification of the Los Alamos sequence library. Nucleic Acids Res. 12 (1) (1984)
Minoru Kanehisa, P. Klein, P. Greif, Charles DeLisi
Computer analysis and structure prediction of nucleic acids and proteins. Nucleic Acids Res. 12 (1) (1984)
Minoru Kanehisa
Use of statistical criteria for screening potential homologies in nucleic acid sequences. Nucleic Acids Res. 12 (1) (1984)