| 2026 | AsiaCCS | Communication-Efficient Publication of Sparse Vectors under Differential Privacy via Poisson Private Representation. | Quentin Hillebrand, Vorapong Suppakitpaisarn, Tetsuo Shibuya |
| 2026 | CPM | Improved Approximation Ratios for the Shortest Common Superstring Problem with Reverse Complements. | Ryosuke Yamano, Tetsuo Shibuya |
| 2026 | ICAART | Adversarial Robustness of Quantum-Enhanced Graph Attention Networks. | Yaswitha Gujju, Romain Harang, Tetsuo Shibuya, Qibin Zhao |
| 2026 | WABI | Theoretically and Practically Faster Algorithms for Protein Structure Alignment. | Masahito Tsukahara, Tetsuo Shibuya |
| 2026 | WABI | Improved Approximation Algorithms and Hardness Results for Shortest Common Superstring with Reverse Complements. | Ryosuke Yamano, Tetsuo Shibuya |
| 2025 | ACISP | Direction-Oriented Smooth Sensitivity and Its Application to Genomic Statistical Analysis. | Akito Yamamoto, Tetsuo Shibuya |
| 2025 | CIAC | Packing Dimers to Maximum Occupancy Under Soft-Core Constraints. | Robert D. Barish, Tetsuo Shibuya |
| 2025 | FCT | Reconfiguring Planar Perfect Matchings via Bounded Length Alternating Cycles. | Robert D. Barish, Tetsuo Shibuya |
| 2025 | QCE | LLM-Guided Anstze Design for Quantum Circuit Born Machines in Financial Generative Modeling. | Yaswitha Gujju, Romain Harang, Tetsuo Shibuya |
| 2025 | STACS | Cycle Counting Under Local Differential Privacy for Degeneracy-Bounded Graphs. | Quentin Hillebrand, Vorapong Suppakitpaisarn, Tetsuo Shibuya |
| 2025 | SPIRE | Faster Algorithm for Bounded Damerau-Levenshtein Distance. | Ryosuke Yamano, Tetsuo Shibuya |
| 2025 | WABI | Linear-Space Subquadratic-Time String Alignment Algorithm for Arbitrary Scoring Matrices. | Ryosuke Yamano, Tetsuo Shibuya |
| 2024 | COCOA | Fair Selection of Clearing Schemes for Kidney Exchange Markets. | Robert D. Barish, Tetsuo Shibuya |
| 2024 | IPCCC | Differentially Private Selection using Smooth Sensitivity. | Akito Yamamoto, Tetsuo Shibuya |
| 2024 | ISCC | Privacy-Optimized Randomized Response for Sharing Multi-Attribute Data. | Akito Yamamoto, Tetsuo Shibuya |
| 2024 | QCE | Enhancing Convergence in Variational Quantum Eigensolver Using CoolMomentum. | Daisuke Tsukayama, Jun-ichi Shirakashi, Tetsuo Shibuya, Hiroshi Imai |
| 2024 | TAMC | Counting on Rainbow k-Connections. | Robert D. Barish, Tetsuo Shibuya |
| 2023 | COCOA | The Fine-Grained Complexity of Approximately Counting Proper Connected Colorings (Extended Abstract). | Robert D. Barish, Tetsuo Shibuya |
| 2023 | DBSEC | Privacy-Preserving Genomic Statistical Analysis Under Local Differential Privacy. | Akito Yamamoto, Tetsuo Shibuya |
| 2023 | ICDM | A Joint Permute-and-Flip and Its Enhancement for Large-Scale Genomic Statistical Analysis. | Akito Yamamoto, Tetsuo Shibuya |
| 2023 | KDD | Unbiased Locally Private Estimator for Polynomials of Laplacian Variables. | Quentin Hillebrand, Vorapong Suppakitpaisarn, Tetsuo Shibuya |
| 2023 | PST | Privacy-Preserving Publication of GWAS Statistics using Smooth Sensitivity. | Akito Yamamoto, Tetsuo Shibuya |
| 2023 | SOFSEM | Hardness of Bounding Influence via Graph Modification. | Robert D. Barish, Tetsuo Shibuya |
| 2022 | COCOON | Proper Colorability of Segment Intersection Graphs. | Robert D. Barish, Tetsuo Shibuya |
| 2022 | LREC | Developing Language Resources and NLP Tools for the North Korean Language. | Arda Akdemir, Yeojoo Jeon, Tetsuo Shibuya |
| 2022 | TrustCom | Efficient and Highly Accurate Differentially Private Statistical Genomic Analysis using Discrete Fourier Transform. | Akito Yamamoto, Tetsuo Shibuya |
| 2021 | WABI | Compression of Multiple k-Mer Sets by Iterative SPSS Decomposition. | Kazushi Kitaya, Tetsuo Shibuya |
| 2020 | ICMLA | Subword Contextual Embeddings for Languages with Rich Morphology. | Arda Akdemir, Tetsuo Shibuya, Tunga Gngr |
| 2020 | ISAAC | Wear Leveling Revisited. | Taku Onodera, Tetsuo Shibuya |
| 2018 | STACS | Succinct Oblivious RAM. | Taku Onodera, Tetsuo Shibuya |
| 2016 | SPIRE | Fast Classification of Protein Structures by an Alignment-Free Kernel. | Taku Onodera, Tetsuo Shibuya |
| 2015 | CEC | Locating controlling regions of neural networks using constrained evolutionary computation. | Mohammad A. Eita, Tetsuo Shibuya, Amin A. Shoukry |
| 2015 | SISAP | Efficient Approximate 3-Dimensional Point Set Matching Using Root-Mean-Square Deviation Score. | Yoichi Sasaki, Tetsuo Shibuya, Kimihito Ito, Hiroki Arimura |
| 2014 | PACBB | Improving miRNA Classification Using an Exhaustive Set of Features. | Sherin M. ElGokhy, Tetsuo Shibuya, Amin A. Shoukry |
| 2013 | WABI | Detecting Superbubbles in Assembly Graphs. | Taku Onodera, Kunihiko Sadakane, Tetsuo Shibuya |
| 2012 | WABI | Succinct de Bruijn Graphs. | Alexander Bowe, Taku Onodera, Kunihiko Sadakane, Tetsuo Shibuya |
| 2011 | ISAAC | An Index Structure for Spaced Seed Search. | Taku Onodera, Tetsuo Shibuya |
| 2011 | PAKDD | A Subpath Kernel for Rooted Unordered Trees. | Daisuke Kimura, Tetsuji Kuboyama, Tetsuo Shibuya, Hisashi Kashima |
| 2009 | RECOMB | Searching Protein 3-D Structures in Linear Time. | Tetsuo Shibuya |
| 2009 | WABI | Linear-Time Protein 3-D Structure Searching with Insertions and Deletions. | Tetsuo Shibuya, Jesper Jansson, Kunihiko Sadakane |
| 2007 | SPIRE | Prefix-Shuffled Geometric Suffix Tree. | Tetsuo Shibuya |
| 2006 | CPM | Geometric Suffix Tree: A New Index Structure for Protein 3-D Structures. | Tetsuo Shibuya |
| 2003 | WABI | Match Chaining Algorithms for cDNA Mapping. | Tetsuo Shibuya, Igor Kurochkin |
| 1999 | ALENEX | Computing the | Tetsuo Shibuya |
| 1999 | ISAAC | Constructing the Suffix Tree of a Tree with a Large Alphabet. | Tetsuo Shibuya |
| 1999 | SODA | Optimal On-line Algorithms for an Electronic Commerce Money Distribution System. | Hiroshi Kawazoe, Tetsuo Shibuya, Takeshi Tokuyama |
| 1997 | RECOMB | New flexible approaches for multiple sequence alignment. | Tetsuo Shibuya, Hiroshi Imai |