Clinical planning support system-CliPSS. - Ryo Yoshida; Tatsuo Miyazawa; Akio Doi; Taisuke Otsuki (IEEE Computer Graphics and Applications, 1993)

Integrated medical-image system for cancer research and treatment. - Ryutarou Ohbuchi; Tatsuo Miyazawa; Masaki Aono; Akio Koide; Masahiko Kimura; Ryo Yoshida (IBM J. Res. Dev., 1996)

Reactive Virtual Environment System: LivingWorlds multi-user world. - Ryo Yoshida; Carmine F. Greco (EGVE, 1998)

3D web environment for knowledge management. - Ryo Yoshida; Takaaki Murao; Tatsuo Miyazawa (Future Gener. Comput. Syst., 2000)

A Mixed Factors Model for Dimension Reduction and Extraction of a Group Structure in Gene Expression Data. - Ryo Yoshida; Tomoyuki Higuchi; Seiya Imoto (CSB, 2004)

Design of chemo-mechanical actuator using self-oscillating gel. - Shingo Maeda; Shuji Hashimoto; Ryo Yoshida (ROBIO, 2004)

Estimating Time-Dependent Gene Networks from Time Series Microarray Data by Dynamic Linear Models with Markov Switching. - Ryo Yoshida; Seiya Imoto; Tomoyuki Higuchi (CSB, 2005)

A Penalized Likelihood Estimation on Transcriptional Module-Based Clustering. - Ryo Yoshida; Seiya Imoto; Tomoyuki Higuchi (ICCSA (3), 2005)

Prototyping and Evaluation of New Remote Controls for People with Visual Impairment. - Michiaki Yasumura; Ryo Yoshida; Megumi Yoshida (ICCHP, 2006)

ArrayCluster: an analytic tool for clustering, data visualization and module finder on gene expression profiles. - Ryo Yoshida; Tomoyuki Higuchi; Seiya Imoto; Satoru Miyano (Bioinform., 2006)

Computational Genome-Wide Discovery of Aberrant Splice Variations with Exon Expression Profiles. - Ryo Yoshida; Kazuyuki Numata; Seiya Imoto; Masao Nagasaki; Atsushi Doi; Kazuko Ueno; Satoru Miyano (BIBE, 2007)

Chemical robot - Design of self-walking gel. - Shingo Maeda; Yusuke Hara; Ryo Yoshida; Shuji Hashimoto (IROS, 2007)

Statistical Absolute Evaluation of Gene Ontology Terms with Gene Expression Data. - Pramod K. Gupta; Ryo Yoshida; Seiya Imoto; Rui Yamaguchi; Satoru Miyano (ISBRA, 2007)

Finding module-based gene networks with state-space models - Mining high-dimensional and short time-course gene expression data. - Rui Yamaguchi; Ryo Yoshida; Seiya Imoto; Tomoyuki Higuchi; Satoru Miyano (IEEE Signal Process. Mag., 2007)

Analyzing Time Course Gene Expression Data with Biological and Technical Replicates to Estimate Gene Networks by State Space Models. - Osamu Hirose; Ryo Yoshida; Rui Yamaguchi; Seiya Imoto; Tomoyuki Higuchi; Satoru Miyano (Asia International Conference on Modelling and Simulation, 2008)

A New Cell Phone Remote Control for People with Visual Impairment. - Ryo Yoshida; Michiaki Yasumura (ICCHP, 2008)

Self-Oscillating Gel Actuator for Chemical Robotics. - Shingo Maeda; Yusuke Hara; Ryo Yoshida; Shuji Hashimoto (Adv. Robotics, 2008)

Statistical inference of transcriptional module-based gene networks from time course gene expression profiles by using state space models. - Osamu Hirose; Ryo Yoshida; Seiya Imoto; Rui Yamaguchi; Tomoyuki Higuchi; Stephen D. Charnock-Jones; Cristin G. Print; Satoru Miyano (Bioinform., 2008)

Bayesian learning of biological pathways on genomic data assimilation. - Ryo Yoshida; Masao Nagasaki; Rui Yamaguchi; Seiya Imoto; Satoru Miyano; Tomoyuki Higuchi (Bioinform., 2008)

ExonMiner: Web service for analysis of GeneChip Exon array data. - Kazuyuki Numata; Ryo Yoshida; Masao Nagasaki; Ayumu Saito; Seiya Imoto; Satoru Miyano (BMC Bioinform., 2008)

Development of novel self-oscillating molecular robot fueled by organic acid. - Yusuke Hara; Shingo Maeda; Ryo Yoshida; Shuji Hashimoto (IROS, 2009)

Chemical robot-design of peristaltic polymer gel actuator-. - Shingo Maeda; Yusuke Hara; Ryo Yoshida; Shuji Hashimoto (IROS, 2009)

Parameter Estimation of In Silico Biological Pathways with Particle Filtering Towards a Petascale Computing. - Kazuyuki Nakamura; Ryo Yoshida; Masao Nagasaki; Satoru Miyano; Tomoyuki Higuchi (Pacific Symposium on Biocomputing, 2009)

Discovering functional gene pathways associated with cancer heterogeneity via sparse supervised learning. - Shuichi Kawano; Teppei Shimamura; Atsushi Niida; Seiya Imoto; Rui Yamaguchi; Masao Nagasaki; Ryo Yoshida; Cristin G. Print; Satoru Miyano (BIBM, 2010)

Implementation of Sequential Importance Sampling in GPGPU. - Keisuke Hayashi; Masaya M. Saito; Ryo Yoshida; Tomoyuki Higuchi (FUSION, 2010)

Bayesian experts in exploring reaction kinetics of transcription circuits. - Ryo Yoshida; Masaya M. Saito; Hiromichi Nagao; Tomoyuki Higuchi (Bioinform., 2010)

Bayesian Learning in Sparse Graphical Factor Models via Variational Mean-Field Annealing. - Ryo Yoshida; Mike West (J. Mach. Learn. Res., 2010)

Design of Self-Oscillating Gels and Application to Biomimetic Actuators. - Ryo Yoshida (Sensors, 2010)

SiGN-SSM: open source parallel software for estimating gene networks with state space models. - Yoshinori Tamada; Rui Yamaguchi; Seiya Imoto; Osamu Hirose; Ryo Yoshida; Masao Nagasaki; Satoru Miyano (Bioinform., 2011)

Identifying Gene Pathways Associated with Cancer Characteristics via Sparse Statistical Methods. - Shuichi Kawano; Teppei Shimamura; Atsushi Niida; Seiya Imoto; Rui Yamaguchi; Masao Nagasaki; Ryo Yoshida; Cristin G. Print; Satoru Miyano (IEEE ACM Trans. Comput. Biol. Bioinform., 2012)

A study on EGG affected by viscosity and shear rate dependence of fluid and semi-solid diets. - Tatsuya Ishikawa; Ryo Yoshida; Keita Takahashi 005; Hiroshi Inoue; Akira Kobayashi (EMBC, 2013)

Self-oscillating polymer gels as novel biomimetic materials. - Ryo Yoshida (EMBC, 2013)

Automated detection and tracking of many cells by using 4D live-cell imaging data. - Terumasa Tokunaga; Osamu Hirose; Shotaro Kawaguchi; Yu Toyoshima; Takayuki Teramoto; Hisaki Ikebata; Sayuri Kuge; Takeshi Ishihara; Yuichi Iino; Ryo Yoshida (Bioinform., 2014)

Atom Environment Kernels on Molecules. - Hiroshi Yamashita; Tomoyuki Higuchi; Ryo Yoshida (J. Chem. Inf. Model., 2014)

Repulsive parallel MCMC algorithm for discovering diverse motifs from large sequence sets. - Hisaki Ikebata; Ryo Yoshida (Bioinform., 2015)

Accurate Automatic Detection of Densely Distributed Cell Nuclei in 3D Space. - Yu Toyoshima; Terumasa Tokunaga; Osamu Hirose; Manami Kanamori; Takayuki Teramoto; Moon Sun Jang; Sayuri Kuge; Takeshi Ishihara; Ryo Yoshida; Yuichi Iino (PLoS Comput. Biol., 2016)

Bayesian molecular design with a chemical language model. - Hisaki Ikebata; Kenta Hongo; Tetsu Isomura; Ryo Maezono; Ryo Yoshida (J. Comput. Aided Mol. Des., 2017)

SPF-CellTracker: Tracking Multiple Cells with Strongly-Correlated Moves Using a Spatial Particle Filter. - Osamu Hirose; Shotaro Kawaguchi; Terumasa Tokunaga; Yu Toyoshima; Takayuki Teramoto; Sayuri Kuge; Takeshi Ishihara; Yuichi Iino; Ryo Yoshida (IEEE ACM Trans. Comput. Biol. Bioinform., 2018)

Statistical inference of the rate of RNA polymerase II elongation by total RNA sequencing. - Yumi Kawamura; Shinsuke Koyama; Ryo Yoshida (Bioinform., 2019)

Recreation of the Periodic Table with an Unsupervised Machine Learning Algorithm. - Minoru Kusaba; Chang Liu; Yukinori Koyama; Kiyoyuki Terakura; Ryo Yoshida (CoRR, 2019)

Bayesian Algorithm for Retrosynthesis. - Zhongliang Guo 002; Stephen Wu 001; Mitsuru Ohno; Ryo Yoshida (J. Chem. Inf. Model., 2020)

A General Class of Transfer Learning Regression without Implementation Cost. - Shunya Minami; Song Liu 002; Stephen Wu 001; Kenji Fukumizu; Ryo Yoshida (AAAI, 2021)

Lower Perplexity is Not Always Human-Like. - Tatsuki Kuribayashi; Yohei Oseki; Takumi Ito; Ryo Yoshida; Masayuki Asahara; Kentaro Inui (ACL/IJCNLP (1), 2021)

Modeling Human Sentence Processing with Left-Corner Recurrent Neural Network Grammars. - Ryo Yoshida; Hiroshi Noji; Yohei Oseki (EMNLP (1), 2021)

Composition, Attention, or Both? - Ryo Yoshida; Yohei Oseki (EMNLP (Findings), 2022)

Crystal structure prediction with machine learning-based element substitution. - Minoru Kusaba; Chang Liu; Ryo Yoshida (CoRR, 2022)

Bayesian Sequential Stacking Algorithm for Concurrently Designing Molecules and Synthetic Reaction Networks. - Qi Zhang; Chang Liu; Stephen Wu 001; Ryo Yoshida (CoRR, 2022)

Functional Output Regression for Machine Learning in Materials Science. - Megumi Iwayama; Stephen Wu 001; Chang Liu; Ryo Yoshida (J. Chem. Inf. Model., 2022)

Transfer Learning with Affine Model Transformation. - Shunya Minami; Kenji Fukumizu; Yoshihiro Hayashi; Ryo Yoshida (NeurIPS, 2023)

Expansion of Motor High-Efficiency Area by Inserting Magnetic Composite Material into Rotor. - Mitsuhide Sato; Keigo Takazawa; Ryo Yoshida; Masami Nirei; Tsutomu Mizuno (IEEE Access, 2023)

SMiPoly: Generation of a Synthesizable Polymer Virtual Library Using Rule-Based Polymerization Reactions. - Mitsuru Ohno; Yoshihiro Hayashi; Qi Zhang; Yu Kaneko; Ryo Yoshida (J. Chem. Inf. Model., 2023)

Emergent Word Order Universals from Cognitively-Motivated Language Models. - Tatsuki Kuribayashi; Ryo Ueda; Ryo Yoshida; Yohei Oseki; Ted Briscoe; Timothy Baldwin (ACL (1), 2024)

Tree-Planted Transformers: Unidirectional Transformer Language Models with Implicit Syntactic Supervision. - Ryo Yoshida; Taiga Someya; Yohei Oseki (ACL (Findings), 2024)

Targeted Syntactic Evaluation on the Chomsky Hierarchy. - Taiga Someya; Ryo Yoshida; Yohei Oseki (LREC/COLING, 2024)

Tree-Planted Transformers: Large Language Models with Implicit Syntactic Supervision. - Ryo Yoshida; Taiga Someya; Yohei Oseki (CoRR, 2024)

Advancing Extrapolative Predictions of Material Properties through Learning to Learn. - Kohei Noda; Araki Wakiuchi; Yoshihiro Hayashi; Ryo Yoshida (CoRR, 2024)

Scaling Law of Sim2Real Transfer Learning in Expanding Computational Materials Databases for Real-World Predictions. - Shunya Minami; Yoshihiro Hayashi; Stephen Wu 001; Kenji Fukumizu; Hiroki Sugisawa; Masashi Ishii; Isao Kuwajima; Kazuya Shiratori; Ryo Yoshida (CoRR, 2024)

Ensemble dynamics and information flow deduction from whole-brain imaging data. - Yu Toyoshima; Hirofumi Sato; Daiki Nagata; Manami Kanamori; Moon Sun Jang; Koyo Kuze; Suzu Oe; Takayuki Teramoto; Yuishi Iwasaki; Ryo Yoshida; Takeshi Ishihara; Yuichi Iino (PLoS Comput. Biol., 2024)

Developmentally-plausible Working Memory Shapes a Critical Period for Language Acquisition. - Masato Mita; Ryo Yoshida; Yohei Oseki (ACL (1), 2025)

If Attention Serves as a Cognitive Model of Human Memory Retrieval, What is the Plausible Memory Representation? - Ryo Yoshida; Shinnosuke Isono; Kohei Kajikawa; Taiga Someya; Yushi Sugimoto; Yohei Oseki (ACL (1), 2025)

How Students Made Use of an On-Campus Car Sharing System in a University of a Regional Area in Japan. - Grace-Sakura Izawa; Akiko Kawahara; Ryoko Madono; Ryo Yoshioka; Ryo Yoshida; Takashi Yamada (JSAI-isAI, 2025)

On the Realism of LiDAR Spoofing Attacks against Autonomous Driving Vehicle at High Speed and Long Distance. - Takami Sato; Ryo Suzuki; Yuki Hayakawa; Kazuma Ikeda; Ozora Sako; Rokuto Nagata; Ryo Yoshida; Qi Alfred Chen; Kentaro Yoshioka (NDSS, 2025)

MAHGA: Multi-Aspect Heterogeneous Graph Analysis for Harmful Speech Detection on Social Networks. - Ryo Yoshida; Soh Yoshida; Mitsuji Muneyasu (IEEE Access, 2025)

Embedding Learning with Relational Heterogeneous Information in Social Network Posts to Detect Malicious Behavior. - Ryo Yoshida; Soh Yoshida; Mitsuji Muneyasu (IEICE Trans. Fundam. Electron. Commun. Comput. Sci., 2025)

If Attention Serves as a Cognitive Model of Human Memory Retrieval, What is the Plausible Memory Representation? - Ryo Yoshida; Shinnosuke Isono; Kohei Kajikawa; Taiga Someya; Yushi Sugimito; Yohei Oseki (CoRR, 2025)

Bayesian Kernel Regression for Functional Data. - Minoru Kusaba; Megumi Iwayama; Ryo Yoshida (CoRR, 2025)

Rethinking the Relationship between the Power Law and Hierarchical Structures. - Kai Nakaishi; Ryo Yoshida; Kohei Kajikawa; Koji Hukushima; Yohei Oseki (CoRR, 2025)

Derivational Probing: Unveiling the Layer-wise Derivation of Syntactic Structures in Neural Language Models. - Taiga Someya; Ryo Yoshida; Hitomi Yanaka; Yohei Oseki (CoRR, 2025)