About Hiroyuki Kuwahara Hiroyuki Kuwahara Research Scientist, Structural and Functional Bioinformatics Computational modeling synthetic biology Stochastic processes control systems molecular evolution Hiroyuki Kuwahara got his Ph.D. degree in Computer Science from the University of Utah in 2008. He was then a junior researcher at Microsoft Research - Trento during 2007 and 2009. During 2009 and 2012, he was a Ray and Stephanie Lane Fellow at the School of Computer Science at Carnegie Mellon University. Since 2012, he joined the SFB group as a Research Scientist. Research Interests Hiroyuki's area of research is broadly in computational systems and synthetic biology. His main research focus is on the theoretical understanding of how various uncertainties contribute to the relation between Articles Related News January 2021 Simulating evolution to understand a hidden switch 1 min read · Sun, Jan 17 2021 News genomics Computer science computation epigenetics Some organisms evolve an internal switch that can remain hidden for generations until stress flicks it on. July 2017 Our work on developing deep learning method for binding affinity prediction accepted by Bioinformatics (Sequence2Vec) 1 min read · Mon, Jul 24 2017 News Deep learning Congratulates Ramzan, Hiro, and Yu on their work on developing a novel method that combines the strength of probabilistic graphical models, Hilbert space embedding, and deep learning to model binding affinity of transcription factors which was accepted by Bioinformatics. May 2017 Sharing expert experimental knowledge to expedite design 1 min read · Thu, May 25 2017 News synthetic biology bioscience Computer science A repository of metabolic information provides a quick reference tool for designing useful synthetic biological systems. April 2017 Our work on mining growth phenotype data accepted by Bioinformatics 1 min read · Sat, Apr 1 2017 News genome algorithm Congratulates Majed and Hiro on their work on developing a novel constant-column biclustering algorithm for mining co-fit genes from genome-scale growth phenotype data which was accepted by Bioinformatics. April 2016 Our biosynthesis pathway design server, MRE, published in NAR 1 min read · Sun, Apr 17 2016 News Congratulates Hiro, Meshari, and Xuefeng on their work on MRE, a web tool to suggest foreign enzymes for the biosynthesis pathway design with competing endogenous reactions in mind which was published in Nucleic Acids Research. October 2015 Our work on translational bursting published in Integrative Biology 1 min read · Fri, Oct 30 2015 News Integrative Bio Kuwahara June 2015 Our work on parameter estimation methods for gene circuits published in Briefings in Bioinformatics 1 min read · Mon, Jun 29 2015 News Congratulates Ming, Hiro, and Xiaolei on their work on parameter estimation methods for gene circuit modeling from time-series mRNA data which was published in Briefings in Bioinformatics. July 2013 Kuwahara's paper published at Scientific Reports 1 min read · Fri, Jul 26 2013 News Hiroyuki Kuwahara and Xin Gao coauthored a paper, "Stochastic effects as a force to increase the complexity of signaling networks", that was accepted by Scientific Reports (Nature Publishing Group). April 2013 Two papers accepted by ISMB2013 1 min read · Tue, Apr 23 2013 News Two papers are accepted by ISMB2013 (The 21st International Conference on Intelligent Systems for Molecular Biology), to be held in Berlin, Germany, during July 21-23, 2013.
Simulating evolution to understand a hidden switch 1 min read · Sun, Jan 17 2021 News genomics Computer science computation epigenetics Some organisms evolve an internal switch that can remain hidden for generations until stress flicks it on.
Our work on developing deep learning method for binding affinity prediction accepted by Bioinformatics (Sequence2Vec) 1 min read · Mon, Jul 24 2017 News Deep learning Congratulates Ramzan, Hiro, and Yu on their work on developing a novel method that combines the strength of probabilistic graphical models, Hilbert space embedding, and deep learning to model binding affinity of transcription factors which was accepted by Bioinformatics.
Sharing expert experimental knowledge to expedite design 1 min read · Thu, May 25 2017 News synthetic biology bioscience Computer science A repository of metabolic information provides a quick reference tool for designing useful synthetic biological systems.
Our work on mining growth phenotype data accepted by Bioinformatics 1 min read · Sat, Apr 1 2017 News genome algorithm Congratulates Majed and Hiro on their work on developing a novel constant-column biclustering algorithm for mining co-fit genes from genome-scale growth phenotype data which was accepted by Bioinformatics.
Our biosynthesis pathway design server, MRE, published in NAR 1 min read · Sun, Apr 17 2016 News Congratulates Hiro, Meshari, and Xuefeng on their work on MRE, a web tool to suggest foreign enzymes for the biosynthesis pathway design with competing endogenous reactions in mind which was published in Nucleic Acids Research.
Our work on translational bursting published in Integrative Biology 1 min read · Fri, Oct 30 2015 News Integrative Bio Kuwahara
Our work on parameter estimation methods for gene circuits published in Briefings in Bioinformatics 1 min read · Mon, Jun 29 2015 News Congratulates Ming, Hiro, and Xiaolei on their work on parameter estimation methods for gene circuit modeling from time-series mRNA data which was published in Briefings in Bioinformatics.
Kuwahara's paper published at Scientific Reports 1 min read · Fri, Jul 26 2013 News Hiroyuki Kuwahara and Xin Gao coauthored a paper, "Stochastic effects as a force to increase the complexity of signaling networks", that was accepted by Scientific Reports (Nature Publishing Group).
Two papers accepted by ISMB2013 1 min read · Tue, Apr 23 2013 News Two papers are accepted by ISMB2013 (The 21st International Conference on Intelligent Systems for Molecular Biology), to be held in Berlin, Germany, during July 21-23, 2013.
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