Hiroyuki Kuwahara

29 papers A 1B 1C 1Journal 20Unranked 5

Year	Rank	Type	Title / Venue / Authors
2023	J	`jnl`	S-leaping: an efficient downsampling method for large high-throughput sequencing data. Bioinform. Hiroyuki Kuwahara, Xin Gao
2022	J	`jnl`	Deep learning identifies and quantifies recombination hotspot determinants. Bioinform. Yu Li, Siyuan Chen, Trisevgeni Rapakoulia, Hiroyuki Kuwahara, Kevin Y. Yip, Xin Gao
2021	J	`jnl`	Analysis of the effects of related fingerprints on molecular similarity using an eigenvalue entropy approach. J. Cheminformatics Hiroyuki Kuwahara, Xin Gao
2021	J	`jnl`	Stable maintenance of hidden switches as a strategy to increase the gene expression stability. Nat. Comput. Sci. Hiroyuki Kuwahara, Xin Gao
2019	J	`jnl`	Promoter analysis and prediction in the human genome using sequence-based deep learning models. Bioinform. Ramzan Umarov, Hiroyuki Kuwahara, Yu Li, Xin Gao, Victor V. Solovyev
2019	J	`jnl`	Systematic selection of chemical fingerprint features improves the Gibbs energy prediction of biochemical reactions. Bioinform. Meshari Alazmi, Hiroyuki Kuwahara, Othman Soufan, Lizhong Ding, Xin Gao
2018	J	`jnl`	PromID: human promoter prediction by deep learning. CoRR Ramzan Umarov, Hiroyuki Kuwahara, Yu Li, Xin Gao, Victor V. Solovyev
2017	J	`jnl`	Gracob: a novel graph-based constant-column biclustering method for mining growth phenotype data. Bioinform. Majed Alzahrani, Hiroyuki Kuwahara, Wei Wang, Xin Gao
2017	J	`jnl`	Learning gene regulatory networks from gene expression data using weighted consensus. Neurocomputing Chisato Fujii, Hiroyuki Kuwahara, Ge Yu, Lili Guo, Xin Gao
2017	J	`jnl`	Sequence2Vec: a novel embedding approach for modeling transcription factor binding affinity landscape. Bioinform. Hanjun Dai, Ramzan Umarov, Hiroyuki Kuwahara, Yu Li, Le Song, Xin Gao
2016	J	`jnl`	MRE: a web tool to suggest foreign enzymes for the biosynthesis pathway design with competing endogenous reactions in mind. Nucleic Acids Res. Hiroyuki Kuwahara, Meshari Alazmi, Xuefeng Cui, Xin Gao
2015	—	`conf`	Compare local pocket and global protein structure models by small structure patterns. BCB Xuefeng Cui, Hiroyuki Kuwahara, Shuai Cheng Li, Xin Gao
2015	J	`jnl`	Parameter estimation methods for gene circuit modeling from time-series mRNA data: a comparative study. Briefings Bioinform. Ming Fan, Hiroyuki Kuwahara, Xiaolei Wang, Suojin Wang, Xin Gao
2014	J	`jnl`	Modeling DNA affinity landscape through two-round support vector regression with weighted degree kernels. BMC Syst. Biol. Xiaolei Wang, Hiroyuki Kuwahara, Xin Gao
2013	J	`jnl`	A framework for scalable parameter estimation of gene circuit models using structural information. Bioinform. Hiroyuki Kuwahara, Ming Fan, Suojin Wang, Xin Gao
2011	—	`conf`	An efficient parallel stochastic simulation method for analysis of nonviral gene delivery systems. CMSB Hiroyuki Kuwahara, Xin Gao
2011	—	`conf`	Erlang-delayed stochastic chemical kinetic formalism for efficient analysis of biological systems with non-elementary reaction effects. BCB Hiroyuki Kuwahara, Chris J. Myers
2011	J	`jnl`	Learning Genetic Regulatory Network Connectivity from Time Series Data. IEEE ACM Trans. Comput. Biol. Bioinform. Nathan A. Barker, Chris J. Myers, Hiroyuki Kuwahara
2010	J	`jnl`	Temperature Control of Fimbriation Circuit Switch in Uropathogenic PLoS Comput. Biol. Hiroyuki Kuwahara, Chris J. Myers, Michael S. Samoilov
2009	A	`conf`	Genetic design automation. ICCAD Chris J. Myers, Nathan A. Barker, Hiroyuki Kuwahara, Kevin R. Jones, Curtis Madsen, Nam-Phuong D. Nguyen
2009	J	`jnl`	iBioSim: a tool for the analysis and design of genetic circuits. Bioinform. Chris J. Myers, Nathan A. Barker, Kevin R. Jones, Hiroyuki Kuwahara, Curtis Madsen, Nam-Phuong D. Nguyen
2008	J	`jnl`	Development of "Souryu-IV" and "Souryu-V: " Serially connected crawler vehicles for in-rubble searching operations. J. Field Robotics Masayuki Arai, Yoshinori Tanaka, Shigeo Hirose, Hiroyuki Kuwahara, Shingo Tsukui
2008	—	`—`	Model Abstraction and Temporal Behavior Analysis of Genetic Regulatory Networks. Hiroyuki Kuwahara
2008	J	`jnl`	Production-Passage-Time Approximation: A New Approximation Method to Accelerate the Simulation Process of Enzymatic Reactions. J. Comput. Biol. Hiroyuki Kuwahara, Chris J. Myers
2007	B	`conf`	Production-Passage-Time Approximation: A New Approximation Method to Accelerate the Simulation Process of Enzymatic Reactions. RECOMB Hiroyuki Kuwahara, Chris J. Myers
2007	—	`conf`	The Design of a Genetic Muller C-Element. ASYNC Nam-Phuong D. Nguyen, Hiroyuki Kuwahara, Chris J. Myers, James P. Keener
2006	—	`conf`	Abstracted Stochastic Analysis of Type 1 Pili Expression in E.coli. BIOCOMP Hiroyuki Kuwahara, Chris J. Myers, Michael S. Samoilov
2006	J	`jnl`	Automated Abstraction Methodology for Genetic Regulatory Networks. Trans. Comp. Sys. Biology Hiroyuki Kuwahara, Chris J. Myers, Michael S. Samoilov, Nathan A. Barker, Adam P. Arkin
2006	C	`conf`	Learning Genetic Regulatory Network Connectivity from Time Series Data. IEA/AIE Nathan A. Barker, Chris J. Myers, Hiroyuki Kuwahara