| iBioSim: a tool for the analysis and design of genetic circuits CJ Myers, N Barker, K Jones, H Kuwahara, C Madsen, NPD Nguyen Bioinformatics 25 (21), 2848-2849, 2009 | 137 | 2009 |
| An efficient and exact stochastic simulation method to analyze rare events in biochemical systems H Kuwahara, I Mura The Journal of chemical physics 129 (16), 2008 | 107 | 2008 |
| Promoter analysis and prediction in the human genome using sequence-based deep learning models R Umarov, H Kuwahara, Y Li, X Gao, V Solovyev Bioinformatics 35 (16), 2730-2737, 2019 | 98 | 2019 |
| Analysis of transcript-deleterious variants in Mendelian disorders: implications for RNA-based diagnostics S Maddirevula, H Kuwahara, N Ewida, HE Shamseldin, N Patel, ... Genome biology 21, 1-21, 2020 | 68 | 2020 |
| Sequence2vec: a novel embedding approach for modeling transcription factor binding affinity landscape H Dai, R Umarov, H Kuwahara, Y Li, L Song, X Gao Bioinformatics 33 (22), 3575-3583, 2017 | 62 | 2017 |
| MRE: a web tool to suggest foreign enzymes for the biosynthesis pathway design with competing endogenous reactions in mind H Kuwahara, M Alazmi, X Cui, X Gao Nucleic acids research 44 (W1), W217-W225, 2016 | 59 | 2016 |
| Automated abstraction methodology for genetic regulatory networks H Kuwahara, CJ Myers, MS Samoilov, NA Barker, AP Arkin Transactions on computational systems biology VI, 150-175, 2006 | 57 | 2006 |
| Bistability in feedback circuits as a byproduct of evolution of evolvability H Kuwahara, OS Soyer Molecular systems biology 8 (1), 564, 2012 | 55 | 2012 |
| Accurate prediction of hot spot residues through physicochemical characteristics of amino acid sequences P Chen, J Li, L Wong, H Kuwahara, JZ Huang, X Gao Proteins: Structure, Function, and Bioinformatics 81 (8), 1351-1362, 2013 | 50 | 2013 |
| PGCN: Disease gene prioritization by disease and gene embedding through graph convolutional neural networks Y Li, H Kuwahara, P Yang, L Song, X Gao biorxiv, 532226, 2019 | 45 | 2019 |
| A standard-enabled workflow for synthetic biology CJ Myers, J Beal, TE Gorochowski, H Kuwahara, C Madsen, ... Biochemical Society Transactions 45 (3), 793-803, 2017 | 45 | 2017 |
| Learning genetic regulatory network connectivity from time series data N Barker, C Myers, H Kuwahara International Conference on Industrial, Engineering and Other Applications …, 2006 | 43 | 2006 |
| Analysis of the effects of related fingerprints on molecular similarity using an eigenvalue entropy approach H Kuwahara, X Gao Journal of Cheminformatics 13, 1-12, 2021 | 34 | 2021 |
| Temperature Control of Fimbriation Circuit Switch in Uropathogenic Escherichia coli: Quantitative Analysis via Automated Model Abstraction H Kuwahara, CJ Myers, MS Samoilov PLoS Computational Biology 6 (3), e1000723, 2010 | 33 | 2010 |
| The design of a genetic muller c-element NPD Nguyen, H Kuwahara, CJ Myers, JP Keener 13th IEEE International Symposium on Asynchronous Circuits and Systems …, 2007 | 33 | 2007 |
| Stochastic steady state gain in a gene expression process with mRNA degradation control H Kuwahara, R Schwartz Journal of the Royal Society Interface 9 (72), 1589-1598, 2012 | 28 | 2012 |
| Recessive, deleterious variants in SMG8 expand the role of nonsense-mediated decay in developmental disorders in humans F Alzahrani, H Kuwahara, Y Long, M Al-Owain, M Tohary, M AlSayed, ... The American Journal of Human Genetics 107 (6), 1178-1185, 2020 | 23 | 2020 |
| Design and analysis of a robust genetic Muller C-element N Nguyen, C Myers, H Kuwahara, C Winstead, J Keener Journal of theoretical biology 264 (2), 174-187, 2010 | 21 | 2010 |
| Model Abstraction and Temporal Behavior Analysis of Genetic Regulatory Networks. H Kuwahara University of Utah, USA, 2008 | 20 | 2008 |
| Lethal variants in humans: lessons learned from a large molecular autopsy cohort HE Shamseldin, L AlAbdi, S Maddirevula, HS Alsaif, F Alzahrani, N Ewida, ... Genome medicine 13, 1-11, 2021 | 19 | 2021 |
