| 2018 | CPM | A Simple Linear-Time Algorithm for Computing the Centroid and Canonical Form of a Plane Graph and Its Applications. | Tatsuya Akutsu, Colin de la Higuera, Takeyuki Tamura |
| 2018 | ISAAC | New and Improved Algorithms for Unordered Tree Inclusion. | Tatsuya Akutsu, Jesper Jansson, Ruiming Li, Atsuhiro Takasu, Takeyuki Tamura |
| 2016 | BIBE | Finding Influential Genes Using Gene Expression Data and Boolean Models of Metabolic Networks. | Takeyuki Tamura, Tatsuya Akutsu, Chun-Yu Lin, Jinn-Moon Yang |
| 2016 | ICDE | Similar subtree search using extended tree inclusion. | Tomoya Mori, Atsuhiro Takasu, Jesper Jansson, Jaewook Hwang, Takeyuki Tamura, Tatsuya Akutsu |
| 2013 | FCT | On the Complexity of Finding a Largest Common Subtree of Bounded Degree. | Tatsuya Akutsu, Takeyuki Tamura, Avraham A. Melkman, Atsuhiro Takasu |
| 2012 | CPM | Efficient Exponential Time Algorithms for Edit Distance between Unordered Trees. | Tatsuya Akutsu, Takeyuki Tamura, Daiji Fukagawa, Atsuhiro Takasu |
| 2012 | ISAAC | On the Complexity of the Maximum Common Subgraph Problem for Partial k-Trees of Bounded Degree. | Tatsuya Akutsu, Takeyuki Tamura |
| 2012 | MFCS | A Polynomial-Time Algorithm for Computing the Maximum Common Subgraph of Outerplanar Graphs of Bounded Degree. | Tatsuya Akutsu, Takeyuki Tamura |
| 2011 | CISIS | An Improved Clique-Based Method for Computing Edit Distance between Unordered Trees and Its Application to Comparison of Glycan Structures. | Tatsuya Akutsu, Tomoya Mori, Takeyuki Tamura, Daiji Fukagawa, Atsuhiro Takasu, Etsuji Tomita |
| 2009 | ALT | Completing Networks Using Observed Data. | Tatsuya Akutsu, Takeyuki Tamura, Katsuhisa Horimoto |
| 2009 | CIKM | Efficient computation of impact degrees for multiple reactions in metabolic networks with cycles. | Yang Cong, Takeyuki Tamura, Tatsuya Akutsu, Wai-Ki Ching |
| 2009 | CISIS | Measuring Structural Robustness of Metabolic Networks under a Boolean Model Using Integer Programming and Feedback Vertex Sets. | Takeyuki Tamura, Kazuhiro Takemoto, Tatsuya Akutsu |
| 2007 | FCT | An O(1.787 | Takeyuki Tamura, Tatsuya Akutsu |