A proposal of "neuron mask" in neural network algorithm for combinatorial optimization problems. - Yoichi Takenaka; Nobuo Funabiki; Seishi Nishikawa (ICNN, 1997)

A maximum neural network approach for N -queens problems. - Nobuo Funabiki; Yoichi Takenaka; Seishi Nishikawa (Biol. Cybern., 1997)

An improved genetic algorithm using the convex hull for traveling salesman problem. - Yoichi Takenaka; Nobuo Funabiki (SMC, 1998)

A gradual neural network approach for broadcast scheduling in packet radio networks. - Nobuo Funabiki; Yoichi Takenaka; Teruo Higashino (IJCNN, 1999)

A non-feedback neuron filter algorithm for separated board-level routing problems in FPGA-based logic emulation systems. - Yoichi Takenaka; Nobuo Funabiki (IJCNN, 1999)

A Proposal of DNA Computing on Beads with Application to SAT Problems. - Yoichi Takenaka; Akihiro Hashimoto (DNA, 2001)

DNA computing by competitive hybridization for maximum satisfiability problem. - Yoichi Takenaka; Akihiro Hashimoto (IEEE Congress on Evolutionary Computation, 2002)

Shortening the Computational Time of the Fluorescent DNA Computing. - Yoichi Takenaka; Akihiro Hashimoto (DNA, 2002)

Clustering Method for Comparative Analysis between Genomes and Pathways. - Shoko Miyake; Yukako Tohsato; Yoichi Takenaka; Hideo Matsuda (DASFAA, 2003)

A Graph Analysis Method to Detect Metabolic Sub-Networks Based on Phylogenetic Profile. - Shoko Miyake; Yoichi Takenaka; Hideo Matsuda (CSB, 2004)

Inference of Gene Regulatory Network Based on Module Network Model with Gene Functional Classifications. - Kohei Taki; Reiji Teramoto; Yoichi Takenaka; Hideo Matsuda (CSB, 2004)

Graph-based clustering for finding distant relationships in a large set of protein sequences. - Hideya Kawaji; Yoichi Takenaka; Hideo Matsuda (Bioinform., 2004)

Tissue-specific functions based on information content of gene ontology using cap analysis gene expression. - Sami Maekawa; Atsuko Matsumoto; Yoichi Takenaka; Hideo Matsuda (Medical Biol. Eng. Comput., 2007)

Improved Prediction Method for Protein Interactions Using Both Structural and Functional Characteristics of Proteins. - Tatsuya Yoshikawa; Shigeto Seno; Yoichi Takenaka; Hideo Matsuda (Inf. Media Technol., 2010)

An estimation method for inference of gene regulatory net-work using Bayesian network with uniting of partial problems. - Yukito Watanabe; Shigeto Seno; Yoichi Takenaka; Hideo Matsuda (BMC Genom., 2012)

A Method for Isoform Prediction from RNA-Seq Data by Iterative Mapping. - Tomoshige Ohno; Shigeto Seno; Yoichi Takenaka; Hideo Matsuda (Inf. Media Technol., 2012)

Similarity Measure among Structures of Local Government Statute Books Based on Tree Edit Distance. - Yoichi Takenaka; Takeshi Wakao (KSE, 2015)

Detecting shifts in gene regulatory networks during time-course experiments at single-time-point temporal resolution. - Yoichi Takenaka; Shigeto Seno; Hideo Matsuda (J. Bioinform. Comput. Biol., 2015)

Comparative Analysis of Transformation Methods for Gene Expression Profiles in Breast Cancer Datasets. - Yoshiaki Sota; Shigeto Seno; Yoichi Takenaka; Shinzaburo Noguchi; Hideo Matsuda (BIBE, 2016)

Automated transition analysis of activated gene regulation during diauxic nutrient shift in Escherichia coli and adipocyte differentiation in mouse cells. - Yoichi Takenaka; Kazuma Mikami; Shigeto Seno; Hideo Matsuda (BMC Bioinform., 2018)

Chromatin 3D Reconstruction from Chromosomal Contacts Using a Genetic Algorithm. - Viacheslav Kapilevich; Shigeto Seno; Hideo Matsuda; Yoichi Takenaka (IEEE ACM Trans. Comput. Biol. Bioinform., 2019)

Computer-Aided Comparative Law on Meiji Civil Code. - Kaito Koyama; Tomoya Sano; Yoichi Takenaka (JSAI-isAI Workshops, 2021)

Rotational weight update in full-connection layers exceeds dropout in image recognition tasks. - Tetsuya Hori; Yuki Sekiya; Yoichi Takenaka (IIAI-AAI, 2023)

Automating the Creation of Legislative Article Histories in Japanese Commercial Law: A Method for Identifying Corresponding Articles Before and After Amendments. - Taiyo Maehara; Tomoya Sano; Yoichi Takenaka (JSAI-isAI, 2025)

Performance Evaluation of Emotion Classification in Japanese Using RoBERTa and DeBERTa. - Yoichi Takenaka (CoRR, 2025)