| Bioinformatic analysis of post-transcriptional regulation by uORF in human and mouse M Matsui, N Yachie, Y Okada, R Saito, M Tomita FEBS letters 581 (22), 4184-4188, 2007 | 89 | 2007 |
| Deep sequencing reveals as-yet-undiscovered small RNAs in Escherichia coli A Shinhara, M Matsui, K Hiraoka, W Nomura, R Hirano, K Nakahigashi, ... BMC genomics 12, 1-15, 2011 | 79 | 2011 |
| SPLITS: a new program for predicting split and intron-containing tRNA genes at the genome level J Sugahara, N Yachie, Y Sekine, A Soma, M Matsui, M Tomita, A Kanai In silico biology 6 (5), 411-418, 2006 | 62 | 2006 |
| Comprehensive computational analysis of bacterial CRP/FNR superfamily and its target motifs reveals stepwise evolution of transcriptional networks M Matsui, M Tomita, A Kanai Genome biology and evolution 5 (2), 267-282, 2013 | 50 | 2013 |
| Graph Splitting: A Graph-Based Approach for Superfamily-scale Phylogenetic Tree Reconstruction M Matsui, W Iwasaki Systematic Biology, 2019 | 26 | 2019 |
| Machine learning-assisted single-cell Raman fingerprinting for in situ and nondestructive classification of prokaryotes N Kanno, S Kato, M Ohkuma, M Matsui, W Iwasaki, S Shigeto Iscience 24 (9), 2021 | 21 | 2021 |
| A comprehensive software suite for the analysis of cDNAs K Arakawa, H Suzuki, K Fujishima, K Fujimoto, S Ueda, M Matsui, ... Genomics, Proteomics and Bioinformatics 3 (3), 179-188, 2005 | 3 | 2005 |
| Lifestyle evolution analysis by binary-state speciation and extinction (BiSSE) model TK Suzuki, M Matsui, S Sriswasdi, W Iwasaki Environmental Microbial Evolution: Methods and Protocols, 327-342, 2022 | 2 | 2022 |
| Collaborative environmental DNA sampling from petal surfaces of flowering cherry Cerasus × yedoensis ‘Somei-yoshino’ across the Japanese archipelago T Ohta, T Kawashima, NO Shinozaki, A Dobashi, S Hiraoka, T Hoshino, ... Journal of plant research 131, 709-717, 2018 | 2 | 2018 |
| Nondestructive microbial discrimination using single-cell Raman spectra and random forest machine learning algorithm N Kanno, S Kato, M Ohkuma, M Matsui, W Iwasaki, S Shigeto STAR protocols 3 (4), 101812, 2022 | 1 | 2022 |
| NeTaGFT: A similarity network‐based method for trait analysis H Matsumoto, M Matsui Methods in Ecology and Evolution 15 (1), 153-163, 2024 | | 2024 |
| PhyGraFT: a network-based method for phylogenetic trait analysis H Matsumoto, M Matsui bioRxiv, 2022.05. 29.493939, 2022 | | 2022 |
| Comprehensive Understanding of Gene Regulatory Networks Based on Evolutionary Systems Biology M Matsui Keio University, 2014 | | 2014 |
