Tamura Takeyuki 田村武幸

… Alternative Names

TAMURA Takeyuki 田村武幸

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Researcher Number	00437261
Other IDs	https://orcid.org/0000-0003-1596-901X
Affiliation (Current)	2025: 京都大学, 化学研究所, 准教授
Affiliation (based on the past Project Information) *help	2017 – 2024: 京都大学, 化学研究所, 准教授 2011 – 2016: 京都大学, 化学研究所, 助教
Review Section/Research Field	Principal Investigator Basic Section 61030:Intelligent informatics-related / Life / Health / Medical informatics / Theory of informatics / Fundamental theory of informatics Except Principal Investigator System genome science
Keywords	Principal Investigator 代謝ネットワーク / アルゴリズム / 整数計画法 / 定常状態 / ブーリアンモデル / 遺伝子制御ネットワーク / 生育結合 / 流束均衡解析 / 有用物質生産 / NP完全 … More / 整数線形計画法 / 数理モデル / 増殖連動型生産 / 線形計画問題 / 遺伝子削除問題 / 反応削除問題 / 制約モデル / ゲノムスケールモデル / 遺伝子削除 / 微生物 / GPRルール / 遺伝子削除戦略 / 代謝ネットワーク設計 / ゲノムスケール代謝モデル / 混合整数線形計画法 / 増殖連動生産 / 制御方法 / 細胞の制御 / GPRネットワーク / 遺伝子ネットワーク / unification問題 / ブーリアンネットワーク / 線形計画 / 反応削除戦略 / NP完全問題 / 流束均衡解析モデル / 木幅 / 固定パラメータ / 制御 / 動的計画法 / バイオインフォマティクス / 充足可能性問題 / 計算量理論 … More Except Principal Investigator 分子バーコード / 大腸菌 / 長期定常期 / バーコード解析 / deep sequencing / chemical genomics / population dynamics / 相互作用解析 / 細胞のモデル化 / システム生物学 / lag / 細胞死 / 相互作用ネットワーク / population / 分子バーコード欠失株 / ネットワーク / 網羅的 / シミュレーション / モデル化 / 細胞生育 / 混合培養 / 網羅解析 / 必須遺伝子 / CRISPRi / 遺伝的相互作用 / 混合培養液 / 細胞内ネットワーク / 遺伝的ネットワーク / 二重欠失株 / Chemical Genomics / Multiplex解析 / population変動 / 貞コピー可動型発現プラスミド / deep sequence / 一遺伝子欠失株 / ケミカルバイオロジー / 大腸菌population変動解析 / stationary phase / deletion collection / bar-code / E. coli Less

Algorithms for metabolic network design for efficient production of valuable substancesPrincipal Investigator
- Principal Investigator
  
  田村武幸
- Project Period (FY)
  2020 – 2024
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Review Section
  
  Basic Section 61030:Intelligent informatics-related
- Research Institution
  Kyoto University
Survival strategy of a cell; intra- and inter-species interaction analysis by barcode tchnology in Escherichia coli
- Principal Investigator
  
  Mori Hirotada
- Project Period (FY)
  2016 – 2018
- Research Category
  
  Grant-in-Aid for Scientific Research (A)
- Research Field
  
  System genome science
- Research Institution
  Nara Institute of Science and Technology
Methods for controlling biological networks using mathematical modelsPrincipal Investigator
- Principal Investigator
  
  Tamura Takeyuki
- Project Period (FY)
  2016 – 2019
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Research Field
  
  Life / Health / Medical informatics
- Research Institution
  Kyoto University
Strategy of a cell to survive during a long term stationary phase before cell proliferation.
- Principal Investigator
  
  Mori Hirotada
- Project Period (FY)
  2013 – 2015
- Research Category
  
  Grant-in-Aid for Scientific Research (A)
- Research Field
  
  System genome science
- Research Institution
  Nara Institute of Science and Technology
Integrated mathematical model and analysis of Boolean biological networkPrincipal Investigator
- Principal Investigator
  
  Tamura Takeyuki
- Project Period (FY)
  2013 – 2015
- Research Category
  
  Grant-in-Aid for Young Scientists (B)
- Research Field
  
  Theory of informatics
- Research Institution
  Kyoto University
Analysis of gene regulatory networks in Boolean modelsPrincipal Investigator
- Principal Investigator
  
  TAMURA Takeyuki
- Project Period (FY)
  2011 – 2012
- Research Category
  
  Grant-in-Aid for Young Scientists (B)
- Research Field
  
  Fundamental theory of informatics
- Research Institution
  Kyoto University

All 2023 2022 2021 2020 2019 2018 2017 2016 2015 2014 2013 2012 2011 Other

All Journal Article Presentation Book

[Book] 微生物を活用した有用物質の製造技術 (分担執筆: 担当範囲:有用物質を効率的に生産する代謝ネットワークの設計アルゴリズム)2023
- Author(s)
  田村武幸
- Total Pages
  290
- Publisher
  シーエムシー出版
- Data Source
  KAKENHI-PROJECT-23K20386
[Book] 食品と開発 (分担執筆: 担当範囲: 微生物の代謝ネットワーク設計)2023
- Author(s)
  田村武幸
- Total Pages
  112
- Publisher
  インフォーママーケッツジャパン
- Data Source
  KAKENHI-PROJECT-23K20386
[Book] バイオプロセスを用いた有用性物質生産技術 (11.5節を担当)2022
- Author(s)
  田村武幸
- Total Pages
  553
- Publisher
  技術情報協会
- ISBN
  9784861049040
- Data Source
  KAKENHI-PROJECT-23K20386
[Book] Theory and method of completion for a Boolean regulatory network using observed data, Biological Data Mining and Its Applications in Healthcare2014
- Author(s)
  Takeyuki Tamura and Tatsuya Akutsu
- Publisher
  World Scientific
- Data Source
  KAKENHI-PROJECT-23700017
[Journal Article] MetNetComp: Database for Minimal and Maximal Gene-Deletion Strategies for Growth-Coupled Production of Genome-Scale Metabolic Networks2023
- Author(s)
  Tamura Takeyuki
- Journal Title
  
  IEEE/ACM Transactions on Computational Biology and Bioinformatics
  
  Volume: 20 Issue: 6 Pages: 3748-3758
- DOI
  10.1109/tcbb.2023.3317837
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-23K20386
[Journal Article] Gene Deletion Algorithms for Minimum Reaction Network Design by Mixed-Integer Linear Programming for Metabolite Production in Constraint-Based Models: gDel_minRN2023
- Author(s)
  Tamura Takeyuki、Muto-fujita Ai、Tohsato Yukako、Kosaka Tomoyuki
- Journal Title
  
  Journal of Computational Biology
  
  Volume: 30 Issue: 5 Pages: 553-568
- DOI
  10.1089/cmb.2022.0352
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23K20386
[Journal Article] Trimming gene deletion strategies for growth-coupled production in constraint-based metabolic networks: TrimGdel2022
- Author(s)
  Tamura Takeyuki
- Journal Title
  
  IEEE/ACM Transactions on Computational Biology and Bioinformatics
  
  Volume: 20 Issue: 2 Pages: 1-10
- DOI
  10.1109/tcbb.2022.3185221
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-23K20386
[Journal Article] Dynamic Solution Space Division-Based Methods for Calculating Reaction Deletion Strategies for Constraint-Based Metabolic Networks for Substance Production: DynCubeProd2021
- Author(s)
  Ma Yier、Tamura Takeyuki
- Journal Title
  
  Frontiers in Bioinformatics
  
  Volume: 1
- DOI
  10.3389/fbinf.2021.716112
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-23K20386
[Journal Article] Metabolic network design for the production of useful substances2021
- Author(s)
  田村武幸
- Journal Title
  
  JSBi Bioinformatics Review
  
  Volume: 1 Issue: 2 Pages: 37-46
- DOI
  10.11234/jsbibr.2021.3
- NAID
  130008029154
- ISSN
  2435-7022
- Language
  Japanese
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-23K20386
[Journal Article] L1 norm minimal mode-based methods for listing reaction network designs for metabolite production2021
- Author(s)
  Takeyuki Tamura
- Journal Title
  
  IEICE Transactions
  
  Volume: Vol.E104-D,No.05
- NAID
  130008032860
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-23K20386
[Journal Article] Efficient Reaction Deletion Algorithms for Redesign of Constraint-based Metabolic Networks for Metabolite Production with Weak Coupling2021
- Author(s)
  Tamura Takeyuki
- Journal Title
  
  IPSJ Transactions on Bioinformatics
  
  Volume: 14 Issue: 0 Pages: 12-21
- DOI
  10.2197/ipsjtbio.14.12
- NAID
  130007986021
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-23K20386
[Journal Article] Improved Hardness of Maximum Common Subgraph Problems on Labeled Graphs of Bounded Treewidth and Bounded Degree2020
- Author(s)
  Akutsu Tatsuya、Melkman Avraham A.、Tamura Takeyuki
- Journal Title
  
  International Journal of Foundations of Computer Science
  
  Volume: 31 Issue: 02 Pages: 253-273
- DOI
  10.1142/s0129054120500069
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K00391
[Journal Article] Grid-based computational methods for the design of constraint-based parsimonious chemical reaction networks to simulate metabolite production: GridProd2018
- Author(s)
  Tamura Takeyuki
- Journal Title
  
  BMC Bioinformatics
  
  Volume: 19 Issue: 1 Pages: 325-325
- DOI
  10.1186/s12859-018-2352-6
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-16K00391, KAKENHI-PROJECT-16H02485
[Journal Article] On the parameterized complexity of associative and commutative unification2017
- Author(s)
  T. Akutsu, J. Jansson, A. Takasu, T. Tamura
- Journal Title
  
  Theoretical Computer Science
  
  Volume: 660 Pages: 57-74
- DOI
  10.1016/j.tcs.2016.11.026
- NAID
  120006537095
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-PROJECT-26240034, KAKENHI-PROJECT-16K00391
[Journal Article] Computing Minimum Reaction Modifications in a Boolean Metabolic Network2017
- Author(s)
  Takeyuki Tamura Wei Lu Jiangning Song Tatsuya Akutsu
- Journal Title
  
  IEEE/ACM Transactions on Computational Biology and Bioinformatics
  
  Volume: in press
- Peer Reviewed / Acknowledgement Compliant / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16H02485
[Journal Article] Discrimination of singleton and periodic attractors in Boolean networks2017
- Author(s)
  Cheng Xiaoqing、Tamura Takeyuki、Ching Wai-Ki、Akutsu Tatsuya
- Journal Title
  
  Automatica
  
  Volume: 84 Pages: 205-213
- DOI
  10.1016/j.automatica.2017.07.012
- NAID
  120006542020
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K00391, KAKENHI-PROJECT-26240034, KAKENHI-PROJECT-26540125
[Journal Article] Computing Minimum Reaction Modifications in a Boolean Metabolic Network2017
- Author(s)
  Takeyuki Tamura, Wei Lu, Jiangning Song, Tatsuya Akutsu
- Journal Title
  
  IEEE/ACM Transactions on Computational Biology and Bioinformatics
  
  Volume: na Issue: 6 Pages: 1-1
- DOI
  10.1109/tcbb.2017.2777456
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K00391, KAKENHI-PROJECT-16H02485
[Journal Article] Finding and analyzing the minimum set of driver nodes in control of Boolean networks2016
- Author(s)
  W. Hou, T. Tamura, W.-K. Ching and T. Akutsu
- Journal Title
  
  Advances in Complex Systems
  
  Volume: 19 Pages: 1-32
- Peer Reviewed / Acknowledgement Compliant / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16H02485
[Journal Article] Finding and analyzing the minimum set of driver nodes in control of Boolean networks2016
- Author(s)
  Wenpin Hou, Takeyuki Tamura, Wai-Ki. Ching and Tatsuya Akutsu
- Journal Title
  
  Advances in Complex Systems
  
  Volume: 19 Issue: 03 Pages: 1650006-1650006
- DOI
  10.1142/s0219525916500065
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K00391, KAKENHI-PROJECT-26540125
[Journal Article] Computing smallest intervention strategies for multiple metabolic networks in a boolean model.2015
- Author(s)
  Lu, W., Tamura, T., Song, J. & Akutsu, T.
- Journal Title
  
  Journal of computational biology
  
  Volume: 22 Issue: 2 Pages: 85-110
- DOI
  10.1089/cmb.2014.0274
- NAID
  120005657917
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-25250028, KAKENHI-PROJECT-25730005, KAKENHI-PROJECT-26240034, KAKENHI-PROJECT-26540125
[Journal Article] Computational methods for modification of metabolic networks2015
- Author(s)
  T. Tamura, W. Liu, T. Akutsu
- Journal Title
  
  Computational and Structural Biotechnology Journal
  
  Volume: 12 Pages: 376-381
- DOI
  10.1016/j.csbj.2015.05.004
- NAID
  120005712915
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-26540125, KAKENHI-PROJECT-26240034, KAKENHI-PROJECT-25730005, KAKENHI-PROJECT-25250028
[Journal Article] A Fixed-Parameter Algorithm for Detecting a Singleton Attractor in an AND/OR Boolean Network with Bounded Treewidth2015
- Author(s)
  Chia-Jung Chang, Takeyuki Tamura, Kun-Mao Chao and Tatsuya Akutsu
- Journal Title
  
  IEICE Trans. Fundamentals
  
  Volume: E98.A Issue: 1 Pages: 384-390
- DOI
  10.1587/transfun.E98.A.384
- NAID
  130004770922
- ISSN
  0916-8508, 1745-1337
- Language
  English
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-PROJECT-25730005, KAKENHI-PROJECT-26540125
[Journal Article] Similar subtree search using extended tree inclusion2015
- Author(s)
  T. Mori, A. Takasu, J. Jansson, J. Hwang, T. Tamura, T. Akutsu
- Journal Title
  
  IEEE Transactions on Knowledge and Data Engineering
  
  Volume: 27 Issue: 12 Pages: 3360-3373
- DOI
  10.1109/tkde.2015.2457922
- Peer Reviewed / Acknowledgement Compliant / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-26240034, KAKENHI-PROJECT-25730005, KAKENHI-PROJECT-15H02789
[Journal Article] Integer Programming-based Method for Designing Synthetic Metabolic Networks by Minimum Reaction Insertion in a Boolean Model2014
- Author(s)
  Wei Lu*, Takeyuki Tamura*, Jiangning Song, Tatsuya Akutsu, (* joint first authors)
- Journal Title
  
  PLoS ONE
  
  Volume: e92637 Issue: 3 Pages: e92637-e92637
- DOI
  10.1371/journal.pone.0092637
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-25730005
[Journal Article] Colony-live -a high-throughput method for measuring microbial colony growth kinetics- reveals diverse growth effects of gene knockouts in Escherichia coli2014
- Author(s)
  Takeuchi, R. Tamura, T. Nakayashiki, T. Tanaka, Y. Muto, A. Wanner, B. L. Mori, H.
- Journal Title
  
  BMC Microbiol
  
  Volume: 14 Issue: 1 Pages: 171-182
- DOI
  10.1186/1471-2180-14-171
- NAID
  120005830845
- Peer Reviewed / Acknowledgement Compliant / Open Access
- Data Source
  KAKENHI-PUBLICLY-25108716, KAKENHI-PROJECT-25250028
[Journal Article] A polynomial-time algorithm for computing the maximum common connected edge subgraph of outerplanar graphs of bounded degree2013
- Author(s)
  Tatsuya Akutsu, Takeyuki Tamura
- Journal Title
  
  Algorithms
  
  Volume: 6 Issue: 1 Pages: 119-135
- DOI
  10.3390/a6010119
- NAID
  120005243648
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22240009, KAKENHI-PROJECT-23700017
[Journal Article] Finding optimal control policy in probabilistic Boolean networks with hard constraints by using integer programming and dynamic programming2013
- Author(s)
  Xi Chen, Tatsuya Akutsu, Takeyuki Tamura and Wai-Ki Ching
- Journal Title
  
  International Journal of Data Mining and Bioinformatics
  
  Volume: 7(3) Issue: 3 Pages: 321-343
- DOI
  10.1504/ijdmb.2013.053306
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23700017
[Journal Article] A Clique-Based Method Using Dynamic Programming for Computing Edit Distance Between Unordered Trees2012
- Author(s)
  Tomoya Mori, Takeyuki Tamura, Daiji Fukagawa, Atsuhiro Takasu, Etsuji Tomita, Tatsuya Akutsu
- Journal Title
  
  Journal of Computational Biology
  
  Volume: 19(10) Issue: 10 Pages: 1089-1104
- DOI
  10.1089/cmb.2012.0133
- NAID
  120004920413
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21700178, KAKENHI-PROJECT-22240009, KAKENHI-PROJECT-23700017
[Journal Article] Network completion using dynamic programming and least-squares fitting2012
- Author(s)
  N. Nakajima, T. Tamura, Y. Yamanishi, K. Horimoto, T. Akutsu
- Journal Title
  
  The Scientific World Journal
  
  Volume: 2012 Pages: 957620-957620
- DOI
  10.1100/2012/957620
- NAID
  120005054551
- Data Source
  KAKENHI-PROJECT-22650045, KAKENHI-PROJECT-23700017
[Journal Article] Finding a periodic attractor of a Boolean network2012
- Author(s)
  T. Akutsu, S. Kosub, A. A. Melkman, T.Tamura
- Journal Title
  
  IEEE/ACM Transactions on Computational Biology and Bioinformatics
  
  Volume: 9 Issue: 5 Pages: 1410-1421
- DOI
  10.1109/tcbb.2012.87
- NAID
  120004873985
- Data Source
  KAKENHI-PROJECT-22650045, KAKENHI-PROJECT-23700017
[Journal Article] Singleton and 2-periodic attractors of sign-definite Boolean networks2012
- Author(s)
  T. Akutsu, A. A. Melkman, T. Tamura
- Journal Title
  
  Information Processing Letters
  
  Volume: 112 Issue: 1-2 Pages: 35-38
- DOI
  10.1016/j.ipl.2011.10.002
- Data Source
  KAKENHI-PROJECT-22650045, KAKENHI-PROJECT-23700017
[Journal Article] Integer Programming-Based Approach to Attractor Detection and Control of Boolean Networks2012
- Author(s)
  T. Akutsu, Y. Zhao, M. Hayashida, T.Tamura
- Journal Title
  
  IEICE Trans. Inf. & Syst.
  
  Volume: E95.D Issue: 12 Pages: 2960-2970
- DOI
  10.1587/transinf.E95.D.2960
- NAID
  10031161464
- ISSN
  0916-8532, 1745-1361
- Language
  English
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22650045, KAKENHI-PROJECT-23700017
[Journal Article] An Efficient Method of Computing Impact Degrees for Multiple Reactions in Metabolic Networks with Cycles2011
- Author(s)
  T. Tamura, Y. Cong, T. Akutsu, W-K. Ching
- Journal Title
  
  IEICE Trans. Inf. & Syst.
  
  Volume: E94-D Issue: 12 Pages: 2393-2399
- DOI
  10.1587/transinf.E94.D.2393
- NAID
  10030538036
- ISSN
  0916-8532, 1745-1361
- Language
  English
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22650045, KAKENHI-PROJECT-23700017
[Presentation] MetNetComp: ゲノムスケール代謝ネットワークにおける増殖連動生産のための極小と極大の遺伝子削除戦略のデータベース2023
- Author(s)
  田村武幸
- Organizer
  第12回生命医薬情報学連合大会
- Data Source
  KAKENHI-PROJECT-23K20386
[Presentation] 精密発酵のための数理代謝工学とデータベース開発2023
- Author(s)
  田村武幸
- Organizer
  第五回細胞農業会議
- Invited
- Data Source
  KAKENHI-PROJECT-23K20386
[Presentation] Trimming gene deletion strategies for growth-coupled production in constraint-based metabolic networks: TrimGdel2022
- Author(s)
  Takeyuki Tamura
- Organizer
  第11回生命医薬情報学連合大会 (口頭)
- Data Source
  KAKENHI-PROJECT-23K20386
[Presentation] 数理代謝工学による細胞の最適化2022
- Author(s)
  田村武幸
- Organizer
  第四回細胞農業会議 (口頭)
- Data Source
  KAKENHI-PROJECT-23K20386
[Presentation] Dynamic solution space division-based methods for calculating reaction deletion strategies of constraint-based metabolic networks for substance production2022
- Author(s)
  Yier Ma, Takeyuki Tamura
- Organizer
  第11回生命医薬情報学連合大会 (ポスター)
- Data Source
  KAKENHI-PROJECT-23K20386
[Presentation] Gene deletion algorithms for minimum reaction network design by mixed-integer linear programming for metabolite production in constraint-based models: gDel_minRN2021
- Author(s)
  Takeyuki Tamura, Ai Muto-Fujita, Yukako Tohsato and Tomoyuki Kosaka
- Organizer
  第10回生命医薬情報学連合大会
- Data Source
  KAKENHI-PROJECT-23K20386
[Presentation] Efficient reaction deletion algorithms for redesign of constraint-based metabolic networks for metabolite production with weak coupling2021
- Author(s)
  田村武幸
- Organizer
  第65回情報処理学会バイオ情報学研究会
- Data Source
  KAKENHI-PROJECT-23K20386
[Presentation] 有用物質を生産する代謝ネットワーク設計の高速アルゴリズム2020
- Author(s)
  田村武幸
- Organizer
  第9回生命医薬情報学連合大会
- Data Source
  KAKENHI-PROJECT-23K20386
[Presentation] Growth-coupled overproduction is theoretically possible for most metabolites in Saccharomyces cerevisiae under anaerobic conditions2019
- Author(s)
  Takeyuki Tamura
- Organizer
  Intelligent Systems for Molecular Biology 2019
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K00391
[Presentation] Algorithms for analyzing and controlling Boolean networks as biological networks2019
- Author(s)
  Takeyuki Tamura
- Organizer
  International workshop on Boolean networks
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K00391
[Presentation] Growth-coupled overproduction is theoretically possible for most metabolites in Saccharomyces cerevisiae under anaerobic condition2019
- Author(s)
  Takeyuki Tamura
- Organizer
  The 20th international workshop in systems biology
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K00391
[Presentation] 有用化合物を生産・増産する代謝ネットワークの設計2019
- Author(s)
  田村　武幸
- Organizer
  生命医薬情報学連合大会2019
- Data Source
  KAKENHI-PROJECT-16K00391
[Presentation] Integer linear programming-based methods for controlling Boolean metabolic networks2019
- Author(s)
  Takeyuki Tamura
- Organizer
  Qualitative computational modeling for biological networks: A workshop in the 20th international workshop in systems biology
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K00391
[Presentation] Growth-coupled overproduction is theoretically possible for most metabolites in Saccharomyces cerevisiae under anaerobic conditions2019
- Author(s)
  Takeyuki Tamura
- Organizer
  19th Annual International Workshop on Bioinformatics and Systems Biology
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K00391
[Presentation] 嫌気条件での出芽酵母を用いた生育結合増産の可能性2019
- Author(s)
  田村　武幸
- Organizer
  情報処理学会バイオ情報学研究会
- Data Source
  KAKENHI-PROJECT-16K00391
[Presentation] Growth-coupled overproduction is theoretically possible for most metabolites in Saccharomyces cerevisiae under anaerobic condition2019
- Author(s)
  田村　武幸
- Organizer
  生命医薬情報学連合大会2019
- Data Source
  KAKENHI-PROJECT-16K00391
[Presentation] Growth-coupled overproduction is theoretically possible for most metabolites in Saccharomyces cerevisiae under anaerobic conditions2019
- Author(s)
  Takeyuki Tamura
- Organizer
  Metabolic Pathway Analysis 2019
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K00391
[Presentation] 有用物質を生産・増産する準最適な代謝流束均衡モデルのデザイン2018
- Author(s)
  田村武幸
- Organizer
  日本生物工学大会
- Data Source
  KAKENHI-PROJECT-16H02485
[Presentation] 有用物質を生産・増産する準最適な代謝流束均衡モデルのデザイン2018
- Author(s)
  田村武幸
- Organizer
  日本生物工学大会
- Data Source
  KAKENHI-PROJECT-16K00391
[Presentation] 有用化合物を生産・増産する代謝ネットワークを設計するアルゴリズム2018
- Author(s)
  田村武幸
- Organizer
  情報処理学会バイオ情報学研究会
- Data Source
  KAKENHI-PROJECT-16H02485
[Presentation] Grid-Based Computational Methods for the Design of Constraint-Based Parsimonious Chemical Reaction Networks to Simulate Metabolite Production: Gridprod2018
- Author(s)
  Takeyuki Tamura
- Organizer
  COBRA conference 2018
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K00391
[Presentation] Computational methods for design of metabolic networks for production of valuable compounds2018
- Author(s)
  Takeyuki Tamura
- Organizer
  生命医薬情報学連合大会2018
- Data Source
  KAKENHI-PROJECT-16K00391
[Presentation] 有用化合物を生産・増産する代謝ネットワークを設計するアルゴリズム2018
- Author(s)
  田村武幸
- Organizer
  情報処理学会バイオ情報学研究会
- Data Source
  KAKENHI-PROJECT-16K00391
[Presentation] 有用化合物を生産・増産する代謝ネットワークのデザインの計算2017
- Author(s)
  田村武幸
- Organizer
  2017年度大腸菌システム生物学研究会
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K00391
[Presentation] 有用化合物を生産・増産する代謝ネットワークのデザインの計算2017
- Author(s)
  田村武幸
- Organizer
  第117回京都大学化学研究所研究発表会
- Data Source
  KAKENHI-PROJECT-16K00391
[Presentation] Computing Minimum Reaction Modification in a Boolean Metabolic Network2016
- Author(s)
  Takeyuki Tamura
- Organizer
  2016 Biotech and Pharmaceutical Service Platform - Biological Network Analysis Conference
- Place of Presentation
  新竹、台湾
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16H02485
[Presentation] Finding influential genes using gene expression data and Boolean models of metabolic networks2016
- Author(s)
  Takeyuki Tamura
- Organizer
  IEEE 16th International Conference on Bioinformatics and Bioengineering
- Place of Presentation
  Taichung, Taiwan
- Year and Date
  2016-10-31
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K00391
[Presentation] Computing Minimum Reaction Modifications in a Boolean Metabolic Network2015
- Author(s)
  Takeyuki Tamura
- Organizer
  GIW/InCoB2015
- Place of Presentation
  東京
- Year and Date
  2015-09-09
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-25730005
[Presentation] Integer Programming-based Method for Designing Synthetic Metabolic Networks by Minimum Reaction Insertion in a Boolean Model2015
- Author(s)
  Takeyuki Tamura
- Organizer
  情報処理学会バイオ情報学研究会
- Place of Presentation
  横浜
- Year and Date
  2015-09-12
- Data Source
  KAKENHI-PROJECT-25730005
[Presentation] On the complexity of the maximum common subgraph problem for partial k-trees of bounded degree2012
- Author(s)
  Tatsuya Akutsu and Takeyuki Tamura
- Organizer
  Proc. 23rd International Symposium on Algorithms and Computation (ISAAC 2012)
- Place of Presentation
  Taipei, Taiwan
- Data Source
  KAKENHI-PROJECT-23700017
[Presentation] On the complexity of the maximum common subgraph problem for partial k-trees of bounded degree, Proc2012
- Author(s)
  Tatsuya Akutsu and Takeyuki Tamura
- Organizer
  23rd International Symposium on Algorithms and Computation (ISAAC 2012)
- Place of Presentation
  台湾台北市(pp.146--155)
- Year and Date
  2012-12-19
- Data Source
  KAKENHI-PROJECT-23700017
[Presentation] Efficient exponential time algorithms for edit distance between unordered trees, Proc2012
- Author(s)
  Tatsuya Akutsu, Takeyuki Tamura, Daiji Fukagawa and Atsuhiro Takasu
- Organizer
  23rd Annual Symposium on Combinatorial Pattern Matching (CPM 2012)
- Place of Presentation
  フィンランド・ヘルシンキ市(pp.360--372)
- Year and Date
  2012-07-05
- Data Source
  KAKENHI-PROJECT-23700017
[Presentation] Integer programming method for completing ortholog-based gene-protein-reaction network by gene essentiality2012
- Author(s)
  Takeyuki Tamura and Tatsuya Akutsu
- Organizer
  The 23rd International Conference on Genome Informatics (GIW2012)
- Place of Presentation
  Tainan, Taiwan
- Data Source
  KAKENHI-PROJECT-23700017
[Presentation] A polynomial-time algorithm for computing the maximum common subgraph of outerplanar graphs of bounded degree2012
- Author(s)
  Tatsuya Akutsu and Takeyuki Tamura
- Organizer
  Proc. 37th International Symposium on Mathematical Foundations of Computer Science (MFCS 2012)
- Place of Presentation
  Bratislava, Slovakia
- Data Source
  KAKENHI-PROJECT-23700017
[Presentation] Efficient exponential time algorithms for edit distance between unordered trees2012
- Author(s)
  Tatsuya Akutsu, Takeyuki Tamura, Daiji Fukagawa and Atsuhiro Takasu
- Organizer
  Proc. 23rd Annual Symposium on Combinatorial Pattern Matching (CPM 2012)
- Place of Presentation
  Helsinki, Finland
- Data Source
  KAKENHI-PROJECT-23700017
[Presentation] A polynomial-time algorithm for computing the maximum common subgraph of outerplanar graphs of bounded degree, Proc2012
- Author(s)
  Tatsuya Akutsu and Takeyuki Tamura
- Organizer
  37th International Symposium on Mathematical Foundations of Computer Science (MFCS 2012)
- Place of Presentation
  スロバキア・ブラティスラバ市(pp.76--87)
- Year and Date
  2012-08-30
- Data Source
  KAKENHI-PROJECT-23700017
[Presentation] Predicting essential genes via impact degree on metabolic networks2011
- Author(s)
  Takeyuki Tamura
- Organizer
  First International Symposium on Symbolic Systems Biology (ISSSB'11)
- Place of Presentation
  Shonan Village Centre, Japan
- Data Source
  KAKENHI-PROJECT-23700017
[Presentation] On the parameterized complexity of associative and commutative unification
- Author(s)
  Tatsuya Akutsu, Jesper Jansson, Atsuhiro Takasu, Takeyuki Tamura
- Organizer
  9th International Symposium on Parameterized and Exact Computation (IPEC 2014)
- Place of Presentation
  ヴロツワフ（ポーランド）
- Year and Date
  2014-09-08 – 2014-09-12
- Data Source
  KAKENHI-PROJECT-25730005

1. KOSAKA Tomouki (70500453)

# of Collaborated Projects: 3 results

# of Collaborated Products: 2 results
2. TOHSATO Yukari (80346171)

# of Collaborated Projects: 2 results

# of Collaborated Products: 2 results
3. SAITO Natsumi (50287546)

# of Collaborated Projects: 2 results

# of Collaborated Products: 0 results
4. Mori Hirotada (90182203)

# of Collaborated Projects: 2 results

# of Collaborated Products: 1 results
5. YAMADA Mamoru (30174741)

# of Collaborated Projects: 2 results

# of Collaborated Products: 0 results
6. MATSUNO Hiroshi (10181744)

# of Collaborated Projects: 2 results

# of Collaborated Products: 0 results
7. MAKI Yasushi (60401733)

# of Collaborated Projects: 2 results

# of Collaborated Products: 0 results
8. 片岡正和 (90332676)

# of Collaborated Projects: 2 results

# of Collaborated Products: 0 results
9. NAKAHIGASHI Kenji (70322740)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
10. 川野光興 (00455338)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
11. 武藤愛 (80730506)

# of Collaborated Projects: 1 results

# of Collaborated Products: 2 results
12. FUKAGAWA Daiji

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
13. 阿久津達也

# of Collaborated Projects: 0 results

# of Collaborated Products: 7 results

Tamura Takeyuki 田村 武幸

TAMURA Takeyuki 田村 武幸

Research Projects

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Algorithms for metabolic network design for efficient production of valuable substancesPrincipal Investigator

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Survival strategy of a cell; intra- and inter-species interaction analysis by barcode tchnology in Escherichia coli

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Methods for controlling biological networks using mathematical modelsPrincipal Investigator

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Strategy of a cell to survive during a long term stationary phase before cell proliferation.

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Integrated mathematical model and analysis of Boolean biological networkPrincipal Investigator

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Analysis of gene regulatory networks in Boolean modelsPrincipal Investigator

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[Book] 微生物を活用した有用物質の製造技術 (分担執筆: 担当範囲:有用物質を効率的に生産する代謝ネットワークの設計アルゴリズム)2023

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[Book] 食品と開発 (分担執筆: 担当範囲: 微生物の代謝ネットワーク設計)2023

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[Book] バイオプロセスを用いた有用性物質生産技術 (11.5節を担当)2022

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[Book] Theory and method of completion for a Boolean regulatory network using observed data, Biological Data Mining and Its Applications in Healthcare2014

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[Journal Article] MetNetComp: Database for Minimal and Maximal Gene-Deletion Strategies for Growth-Coupled Production of Genome-Scale Metabolic Networks2023

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[Journal Article] Gene Deletion Algorithms for Minimum Reaction Network Design by Mixed-Integer Linear Programming for Metabolite Production in Constraint-Based Models: gDel_minRN2023

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[Journal Article] Trimming gene deletion strategies for growth-coupled production in constraint-based metabolic networks: TrimGdel2022

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[Journal Article] Dynamic Solution Space Division-Based Methods for Calculating Reaction Deletion Strategies for Constraint-Based Metabolic Networks for Substance Production: DynCubeProd2021

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Tamura Takeyuki 田村武幸

TAMURA Takeyuki 田村武幸