| 2022 | CIBCB | Inference of Genetic Networks using Random Forests: A Quantitative Weighting Method for Gene Expression Data. | Shuhei Kimura, Kazuki Sota, Masato Tokuhisa |
| 2018 | BIBE | Inference of Genetic Networks Using Random Forests: Use of Different Weights for Time-Series and Static Gene Expression Data. | Shuhei Kimura, Masato Tokuhisa, Mariko Okada-Hatakeyama |
| 2017 | CIBCB | Inference of genetic networks from time-series of gene expression levels using random forests. | Shuhei Kimura, Masato Tokuhisa, Mariko Okada-Hatakeyama |
| 2016 | CIBCB | Simultaneous execution method of gene clustering and network inference. | Shuhei Kimura, Masato Tokuhisa, Mariko Okada-Hatakeyama |
| 2015 | IJCNN | Improvement of reliabilities of regulations using a hierarchical structure in a genetic network. | Shuhei Kimura, Mariko Okada-Hatakeyama |
| 2013 | IJCNN | Development of an efficient parameter estimation method for the inference of Vohradsk's neural network models of genetic networks. | Shuhei Kimura, Masanao Sato, Mariko Okada-Hatakeyama |
| 2012 | IJCNN | Inference of S-system models of genetic networks by solving linear programming problems and sets of linear algebraic equations. | Shuhei Kimura, Koki Matsumura, Mariko Okada-Hatakeyama |
| 2011 | CEC | Constrained multimodal function optimization using a simple evolutionary algorithm. | Shuhei Kimura, Koki Matsumura |
| 2010 | CEC | Effective parameter estimation for S-system models using LPMs and evolutionary algorithms. | Shuhei Kimura, Yusuke Amano, Koki Matsumura, Mariko Okada-Hatakeyama |
| 2010 | ICCSA | Bootstrap Analysis of Genetic Networks inferred by the Method Using LPMs. | Shuhei Kimura, Koki Matsumura, Mariko Okada-Hatakeyama |
| 2009 | IJCNN | Inference of genetic networks using linear programming machines: Application of a priori knowledge. | Shuhei Kimura, Yuichi Shiraishi, Mariko Hatakeyama |
| 2008 | CEC | Density estimation using crossover kernels and its application to a real-coded genetic algorithm. | Shuhei Kimura, Koki Matsumura |
| 2007 | IJCNN | Inference of Genetic Networks using a Reduced NGnet Model. | Shuhei Kimura, Katsuki Sonoda, Soichiro Yamane, Kotaro Yoshida, Koki Matsumura, Mariko Hatakeyama |
| 2006 | IJCNN | Function Approximation Approach to the Inference of Normalized Gaussian Network Models of Genetic Networks. | Shuhei Kimura, Katsuki Sonoda, Soichiro Yamane, Koki Matsumura, Mariko Hatakeyama |
| 2005 | CEC | Inference of genetic networks using neural network models. | Shuhei Kimura, Katsuki Sonoda, Soichiro Yamane, Koki Matsumura, Mariko Hatakeyama |
| 2005 | GECCO | Genetic algorithms using low-discrepancy sequences. | Shuhei Kimura, Koki Matsumura |
| 2003 | CEC | Inference of S-system models of genetic networks using a genetic local search. | Shuhei Kimura, Mariko Hatakeyama, Akihiko Konagaya |
| 2003 | SMC | High dimensional function optimization using a new genetic local search suitable for parallel computers. | Shuhei Kimura, Akihiko Konagaya |