TAMURA Takeyuki

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Name
TAMURA Takeyuki
Affiliation
Kyoto University
Research funding number
00437261

Research Areas

 
 

Published Papers

 
Bao Y, Marini S, Tamura T, Kamada M, Maegawa S, Hosokawa H, Song J, Akutsu T
Briefings in bioinformatics      May 2018   [Refereed]
Takeyuki Tamura, Wei Lu, Jiangning Song, Tatsuya Akutsu
IEEE/ACM Trans. Comput. Biology Bioinform.   15(6) 1853-1862   Nov 2018   [Refereed]
Wei Lu*, Takeyuki Tamura*, Jiangning Song, and Tatsuya Akutsu, (* joint first authors)
Journal of Computational Biology   22(2) 85-110   Feb 2015   [Refereed]
Takeyuki Tamura,Tatsuya Akutsu,Chun-Yu Lin,Jinn-Moon Yang
16th IEEE International Conference on Bioinformatics and Bioengineering, BIBE 2016, Taichung, Taiwan, October 31 - November 2, 2016   2016(BIBE) 63-63   2016   [Refereed]
Tomoya Mori,Atsuhiro Takasu,Array,Jaewook Hwang,Takeyuki Tamura,Tatsuya Akutsu
32nd IEEE International Conference on Data Engineering, ICDE 2016, Helsinki, Finland, May 16-20, 2016   1558-1559   2016   [Refereed]
Tatsuya Akutsu,Array,Atsuhiro Takasu,Takeyuki Tamura
Theor. Comput. Sci.   660 57-74   Jan 2017   [Refereed]
Tatsuya Akutsu,Jesper Jansson,Ruiming Li,Atsuhiro Takasu,Takeyuki Tamura
29th International Symposium on Algorithms and Computation, ISAAC 2018, December 16-19, 2018, Jiaoxi, Yilan, Taiwan   27:1-27:12   2018   [Refereed]
Wenpin Hou,Takeyuki Tamura,Wai-Ki Ching,Tatsuya Akutsu
Advances in Complex Systems   19(3) 1-32   2016   [Refereed]
Xiaoqing Cheng,Takeyuki Tamura,Wai-Ki Ching,Tatsuya Akutsu
Automatica   84 205-213   Oct 2017   [Refereed]
Tatsuya Akutsu,Colin de la Higuera,Takeyuki Tamura
Annual Symposium on Combinatorial Pattern Matching, CPM 2018, July 2-4, 2018 - Qingdao, China   10:1-10:12   2018   [Refereed]
Tomoya Mori,Atsuhiro Takasu,Array,Jaewook Hwang,Takeyuki Tamura,Tatsuya Akutsu
IEEE Trans. Knowl. Data Eng.   27(12) 3360-3373   Dec 2015   [Refereed]
Yushan Qiu, Takeyuki Tamura, Wai-Ki Ching, and Tatsuya Akutsu
BMC Systems Biology   8(S1:S7) S7   Jan 2014   [Refereed]
Tatsuya Akutsu,Takeyuki Tamura,Avraham A. Melkman,Atsuhiro Takasu
Theor. Comput. Sci.   590 2-16   2015   [Refereed]
Chia-Jung Chang, Takeyuki Tamura, Kun-Mao Chao and Tatsuya Akutsu
IEICE Transactions on Fundamentals of Electronics, Communications and Computer Sciences   E98.A(1) 384-390   Jan 2015   [Refereed]
Tatsuya Akutsu,Jesper Jansson,Atsuhiro Takasu,Takeyuki Tamura
Parameterized and Exact Computation - 9th International Symposium, IPEC 2014, Wroclaw, Poland, September 10-12, 2014. Revised Selected Papers   8894 15-27   2014   [Refereed]
Tamura T, Lu W, Akutsu T
Computational and structural biotechnology journal   13 376-381   2015   [Refereed]
Wei Lu*, Takeyuki Tamura*, Jiangning Song, and Tatsuya Akutsu, (* joint first authors)
PLoS ONE   9(3) e92637   Mar 2014   [Refereed]
Rikiya Takeuchi, Takeyuki Tamura, Toru Nakayashiki, Yuichirou Tanaka, Ai Muto, Barry L. Wanner, and Hirotada Mori
BMC Microbiology   14(1) 171   Jun 2014   [Refereed]
Tatsuya Akutsu,Takeyuki Tamura,Atsuhiro Takasu
CoRR   abs/1310.0919    2013
Tomoya Mori,Takeyuki Tamura,Daiji Fukagawa,Atsuhiro Takasu,Etsuji Tomita,Tatsuya Akutsu
Journal of Computational Biology   19(10) 1089-1104   Oct 2012   [Refereed]
Tatsuya Akutsu,Takeyuki Tamura
Algorithms and Computation - 23rd International Symposium, ISAAC 2012, Taipei, Taiwan, December 19-21, 2012. Proceedings   146-155   2012   [Refereed]
Tatsuya Akutsu,Sven Kosub,Avraham A. Melkman,Takeyuki Tamura
IEEE/ACM Trans. Comput. Biology Bioinform.   9(5) 1410-1421   2012   [Refereed]
Tatsuya Akutsu,Avraham A. Melkman,Takeyuki Tamura
Inf. Process. Lett.   112(1-2) 35-38   2012   [Refereed]
Tatsuya Akutsu,Yang Zhao,Morihiro Hayashida,Takeyuki Tamura
IEICE Transactions   E95-D(12) 2960-2970   2012   [Refereed]
Tatsuya Akutsu,Daiji Fukagawa,Atsuhiro Takasu,Takeyuki Tamura
Theor. Comput. Sci.   412(4-5) 352-364   2011   [Refereed]
Tatsuya Akutsu,Avraham A. Melkman,Takeyuki Tamura,Masaki Yamamoto 0001
Journal of Computational Biology   18(10) 1275-1290   2011   [Refereed]
Takeyuki Tamura,Yang Cong,Tatsuya Akutsu,Wai-Ki Ching
IEICE Transactions   94-D(12) 2393-2399   2011   [Refereed]
Daiji Fukagawa,Takeyuki Tamura,Atsuhiro Takasu,Etsuji Tomita,Tatsuya Akutsu
BMC Bioinformatics   12(S-1) S13   2011   [Refereed]
Avraham A. Melkman,Takeyuki Tamura,Tatsuya Akutsu
Inf. Process. Lett.   110(14-15) 565-569   2010   [Refereed]
Takeyuki Tamura,Kazuhiro Takemoto,Tatsuya Akutsu
IJKDB   1(1) 14-31   2010   [Refereed]
Takeyuki Tamura,Tatsuya Akutsu
IEICE Transactions   93-A(8) 1497-1507   2010   [Refereed]
T. Tamura; T. Akutsu
Mathematics in Computer Science   2(3) 401-420   2009   [Refereed]
Tatsuya Akutsu,Takeyuki Tamura
IEICE Transactions   92-A(8) 1771-1778   Aug 2009   [Refereed]
Takeyuki Tamura,Tatsuya Akutsu
IEICE Transactions   92-A(2) 493-501   2009   [Refereed]
Finding Minimum Reaction Cuts of Metabolic Networks Under a Boolean Model Using Integer Programming and Feedback Vertex Sets.International Journal of Knowledge Discovery in Bioinformatics, Vol 1, pp. 14-31, (Preliminary version has appeared in IIBM2009)20
Takeyuki Tamura, Kazuhiro Takemoto and Tatsuya Akutsu
, ,      [Refereed]
On Distribution and Enumeration of Attractors in Probabilistic Boolean Networks,IET Systems Biology, Vol. 3, pp. 465-474, (Preliminary version has appeared in OSB 2008) 2009.
Morihiro Hayashida, Takeyuki Tamura, Tatsuya Akutsu, Wai-Ki Ching and Yang Cong
, ,      [Refereed]
H. Ito; K. Iwama; T. Tamura
IEICE Transactions on Fundamentals of Electronics, Communications and Computer Sciences   E89A(5) 1292-1298   May 2006   [Refereed]
T. Tmura; T. Akutsu
IEICE Transactions on Fundamentals of Electronics, Communications and Computer Sciences   E90A(5) 917-923   May 2007   [Refereed]
T. Tamura; M. Hayashida; T. Akutsu; S.-Q. Zhang; W.-K. Ching
Eurasip Journal on Bioinformatics and Systems Biology   2008    2008   [Refereed]
T. Akutsu; M. Hayashida; T. Tamura
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)   5147 1-15   2008   [Refereed]
T. Tamura; T. Akutsu
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)   5147 LNCS 216-229   2008   [Refereed]
T. Tamura; H. Ito
IEICE Transactions on Information and Systems   E91D(2) 162-169   Feb 2008   [Refereed]
X. Chen; T. Akutsu; T. Tamura; W.-K. Ching
International Journal of Data Mining and Bioinformatics   7(3) 322-343   2013   [Refereed]
Y. Zhao; T. Tamura; T. Akutsu; J.-P. Vert
Bioinformatics   29(17) 2178-2185   Sep 2013   [Refereed]
T. Akutsu; T. Tamura; K. Horimoto
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)   5809 LNAI 126-140   2009   [Refereed]
T. Tamura; T. Akutsu
IEICE Transactions on Fundamentals of Electronics, Communications and Computer Sciences   E92A(2) 493-501   Feb 2009   [Refereed]
M. Hayashida; T. Tamura; T. Akutsu; W.-K. Ching; Y. Cong
IET Systems Biology   3(6) 465-474   Nov 2009   [Refereed]
A.A. Melkman; T. Tamura; T. Akutsu
Information Processing Letters   110(14-15) 565-569   2010   [Refereed]
T. Tamura; T. Akutsu
IEICE Transactions on Fundamentals of Electronics, Communications and Computer Sciences   E93A(8) 1497-1507   Aug 2010   [Refereed]
J.B. Brown; T. Urata; T. Tamura; M.A. Arai; T. Kawabata; T. Akutsu
Journal of Bioinformatics and Computational Biology   8 63-81   Dec 2010   [Refereed]
T. Akutsu; T. Tamura; A.A. Melkman; A. Takasu
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)   8070 4-15   2013   [Refereed]
H. Jiang; T. Tamura; W.-K. Ching; T. Akutsu
IEICE Transactions on Fundamentals of Electronics, Communications and Computer Sciences   E96-A(11) 2265-2274   Nov 2013   [Refereed]
T. Akutsu; D. Fukagawa; A. Takasu; T. Tamura
Theoretical Computer Science   412(4-5) 352-364   Feb 2011   [Refereed]
D. Fukagawa; T. Tamura; A. Takasu; E. Tomita; T. Akutsu
BMC Bioinformatics   12    Feb 2011   [Refereed]
N. Nakajima; T. Tamura; Y. Yamanishi; K. Horimoto; T. Akutsu
The Scientific World Journal   2012 957620   2012   [Refereed]
T. Akutsu; T. Tamura; D. Fukagawa; A. Takasu
Journal of Discrete Algorithms   25 79-93   2014   [Refereed]
T. Akutsu; A.A. Melkman; T. Tamura; M. Yamamoto
Journal of Computational Biology   18(10) 1275-1290   Oct 2011   [Refereed]
T. Akutsu; S. Kosub; A.A. Melkman; T. Tamura
IEEE/ACM Transactions on Computational Biology and Bioinformatics   9(5) 1410-1421   Sep 2012   [Refereed]
T. Akutsu; T. Tamura; D. Fukagawa; A. Takasu
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)   7354 360-372   2012   [Refereed]
T. Akutsu; T. Tamura
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)   7464 LNCS 76-87   2012   [Refereed]
T. Akutsu; M. Hayashida; T. Tamura
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)   7632 233-242   2012   [Refereed]
K. Takemoto; T. Tamura; Y. Cong; W.-K. Ching; J.-P. Vert; T. Akutsu
Physica A: Statistical Mechanics and its Applications   391(1-2) 379-387   Jan 2012   [Refereed]
T. Akutsu; A.A. Melkman; T. Tamura
Information Processing Letters   112(1-2) 35-38   Jan 2012   [Refereed]
T. Akutsu; Y. Zhao; M. Hayashida; T. Tamura
IEICE Transactions on Information and Systems   E95D(12) 2960-2970   Dec 2012   [Refereed]
K. Takemoto; T. Tamura; T. Akutsu
Physica A: Statistical Mechanics and its Applications   392(21) 5525-5535   2013   [Refereed]
Finding optimal control policy in probabilistic Boolean networks with hard constraints by using integer programming and dynamic programming(Preliminary version has appeared in BIBM 2010), International Journal of Data Mining and Bioinformatics, in press.
Xi Chen, Tatsuya Akutsu, Takeyuki Tamura and Wai-Ki Ching
, ,      [Refereed]
An Efficient Method of Computing Impact Degrees for Multiple Reactions in Metabolic Networks with Cycles, IEICE Transactions on Information and Systems, Vol.E94-D, No.12 pp.2393-2399, 2011.
Takeyuki Tamura, Yang Cong, Tatsuya Akutsu and Wai-Ki Ching
, ,      [Refereed]
Journal of Computational Biology, Determining a singleton attractor of a Boolean network with nested canalyzing functions, Vol. 18(0), pp. 1--16, 2011.
Tatsuya Akutsu, Avraham. A. Melkman, Takeyuki Tamura and Masaki Yamamoto
, ,      [Refereed]
International Journal of Foundations of Computer Science
TAMURA Takeyuki
International Journal of Foundations of Computer Science      [Refereed]

Books etc

 
Biological Data Mining and Its Applications in Healthcare
Takeyuki Tamura and Tatsuya Akutsu (Part:Joint Work, Theory and method of completion for a Boolean regulatory network using observed data)
World Scientific   Jan 2014   

Conference Activities & Talks

 
Growth-coupled overproduction is theoretically possible for most metabolites in Saccharomyces cerevisiae under anaerobic conditions
TAMURA Takeyuki
Metabolic Pathway Analysis 2019   14 Aug 2019   
Growth-coupled overproduction is theoretically possible for most metabolites in Saccharomyces cerevisiae under anaerobic conditions
TAMURA Takeyuki
Intelligent Systems for Molecular Biology 2019   21 Jul 2019   
Growth-coupled overproduction is theoretically possible for most metabolites in Saccharomyces cerevisiae under anaerobic conditions
TAMURA Takeyuki
19th Annual International Workshop on Bioinformatics and Systems Biology   18 Jul 2019   
Growth-coupled overproduction is theoretically possible for most metabolites in Saccharomyces cerevisiae under anaerobic conditions
TAMURA Takeyuki
19 Jun 2019   
Grid-based computational methods for the design of constraint-based parsimonious chemical reaction networks to simulate metabolite production: GridProd.
TAMURA Takeyuki
14 Oct 2018   
Computational methods for design of metabolic networks for production of valuable compounds
TAMURA Takeyuki
20 Sep 2018   
Computing minimum reaction modification in a Boolean metabolic network [Invited]
TAMURA Takeyuki
2016 Biotech and Pharmaceutical Service Platform - Biological Network Analysis Conference   4 Nov 2016   
Computing Minimum Reaction Modifications in a Boolean Metabolic Network
Takeyuki Tamura, Wei Lu, Jiangning Song, Tatsuya Akutsu
GIW/InCoB2015   Sep 2015   
On the parameterized complexity of associative and commutative unification
Tatsuya Akutsu, Jesper Jansson, Atsuhiro Takasu, Takeyuki Tamura
9th International Symposium on Parameterized and Exact Computation (IPEC 2014)   Sep 2014   
On the complexity of finding a largest common subtree of bounded degree
Tatsuya Akutsu, Takeyuki Tamura, Avraham A. Melkman and Atsuhiro Takasu
19th Int. Symp. Fundamentals of Computation Theory (FCT 2013)   2013   
Integer programming method for completing ortholog-based gene-protein-reaction network by gene essentiality
Takeyuki Tamura and Tatsuya Akutsu,
The 23rd International Conference on Genome Informatics (GIW2012)   Dec 2012   
On the complexity of the maximum common subgraph problem for partial k-trees of bounded degree
Tatsuya Akutsu and Takeyuki Tamura
23rd International Symposium on Algorithms and Computation (ISAAC 2012)   Dec 2012   
Efficient exponential time algorithms for edit distance between unordered trees
Tatsuya Akutsu, Takeyuki Tamura, Daiji Fukagawa and Atsuhiro Takasu
23rd Annual Symposium on Combinatorial Pattern Matching (CPM 2012)   Jul 2012   
A polynomial-time algorithm for computing the maximum common subgraph of outerplanar graphs of bounded degree
Tatsuya Akutsu and Takeyuki Tamura
37th International Symposium on Mathematical Foundations of Computer Science (MFCS 2012)   2012   
Predicting essential genes via impact degree on metabolic networks
International Symposium on Symbolic Systems Biology (ISSSB’11)   16 Nov 2011   Shonan, Japan
Measuring structural robustness of metabolic networks under a Boolean model using integer programming and feedback vertex sets
Takeyuki Tamura, Kazuhiro Takemoto, and Tatsuya Akutsu
2nd International Workshop on Intelligent Informatics in Biology and Medicine (IIBM2009)   2009   
Completing networks using observed data
Tatsuya Akutsu, Takeyuki Tamura and Katsuhisa Horimoto
20th International Conference on Algorithmic Learning Theory (ALT 2009)   2009   
An improved algorithm for detecting a singleton attractor in a Boolean network consisting of AND/OR nodes
Takeyuki Tamura and Tatsuya Akutsu
3rd International Conference on Algebraic Biology (AB2008)   2008   
An O(1.787^n)-time algorithm for detecting a singleton attractor in a Boolean network consisting of AND/OR nodes
Takeyuki Tamura and Tatsuya Akutsu
16th International Symposium on Fundamentals of Computation Theory (FCT2007)   2007   
Imperfectness of data for STS-based physical mapping
Hiro Ito, Kazuo Iwama, and Takeyuki Tamura
IFIP World Computer Congress, 2004   2004