| SCODE: an efficient regulatory network inference algorithm from single-cell RNA-Seq during differentiation H Matsumoto, H Kiryu, C Furusawa, MSH Ko, SBH Ko, N Gouda, ... Bioinformatics 33 (15), 2314-2321, 2017 | 431 | 2017 |
| SCOUP: a probabilistic model based on the Ornstein–Uhlenbeck process to analyze single-cell expression data during differentiation H Matsumoto, H Kiryu BMC bioinformatics 17, 1-16, 2016 | 75 | 2016 |
| MixSIH: a mixture model for single individual haplotyping H Matsumoto, H Kiryu BMC genomics 14, 1-14, 2013 | 27 | 2013 |
| Novel metric for hyperbolic phylogenetic tree embeddings H Matsumoto, T Mimori, T Fukunaga Biology Methods and Protocols 6 (1), bpab006, 2021 | 24 | 2021 |
| Alpha 7 nicotinic acetylcholine receptors signaling boosts cell-cell interactions in macrophages effecting anti-inflammatory and organ protection Y Nakamura, H Matsumoto, CH Wu, D Fukaya, R Uni, Y Hirakawa, ... Communications Biology 6 (1), 666, 2023 | 15 | 2023 |
| An NMF-based approach to discover overlooked differentially expressed gene regions from single-cell RNA-seq data H Matsumoto, T Hayashi, H Ozaki, K Tsuyuzaki, M Umeda, T Iida, ... NAR Genomics and Bioinformatics 2 (1), lqz020, 2020 | 11 | 2020 |
| Systemic metabolic alteration dependent on the thyroid‐liver axis in early PD K Miyamoto, S Saiki, H Matsumoto, A Suzuki, Y Yamashita, T Iseki, ... Annals of Neurology 93 (2), 303-316, 2023 | 9 | 2023 |
| Early embryonic mutations reveal dynamics of somatic and germ cell lineages in mice A Uchimura, H Matsumoto, Y Satoh, Y Minakuchi, S Wakayama, ... Genome Research 32 (5), 945-955, 2022 | 8 | 2022 |
| Estimation of population genetic parameters using an EM algorithm and sequence data from experimental evolution populations Y Kojima, H Matsumoto, H Kiryu Bioinformatics 36 (1), 221-231, 2020 | 8 | 2020 |
| DDBJ Data Analysis Challenge: a machine learning competition to predict Arabidopsis chromatin feature annotations from DNA sequences E Kaminuma, Y Baba, M Mochizuki, H Matsumoto, H Ozaki, T Okayama, ... Genes & Genetic Systems 95 (1), 43-50, 2020 | 4 | 2020 |
| IL‐27 produced during acute malaria infection regulates Plasmodium‐specific memory CD4+ T cells ML Macalinao, SI Inoue, S Tsogtsaikhan, H Matsumoto, G Bayarsaikhan, ... EMBO Molecular Medicine 15 (12), e17713, 2023 | 2 | 2023 |
| A novel ex vivo lung cancer model based on bioengineered rat lungs S Mizoguchi, T Tsuchiya, R Doi, T Obata, M Iwatake, S Hashimoto, ... Frontiers in Bioengineering and Biotechnology 11, 1179830, 2023 | 2 | 2023 |
| Persistent thermal input controls steering behavior in Caenorhabditis elegans M Ikeda, H Matsumoto, EJ Izquierdo PLoS Computational Biology 17 (1), e1007916, 2021 | 2 | 2021 |
| An efficient gene regulatory network inference algorithm for early Drosophila melanogaster embryogenesis H Matsumoto, H Kiryu, Y Kojima, S Yaginuma, I Nikaido bioRxiv, 213025, 2017 | 1 | 2017 |
| Integrating dilution-based sequencing and population genotypes for single individual haplotyping H Matsumoto, H Kiryu BMC genomics 15, 1-12, 2014 | 1 | 2014 |
| NeTaGFT: A similarity network‐based method for trait analysis H Matsumoto, M Matsui Methods in Ecology and Evolution 15 (1), 153-163, 2024 | | 2024 |
| Transcription factor-binding k-mer analysis clarifies the cell type dependency of binding specificities and cis-regulatory SNPs in humans S Tahara, T Tsuchiya, H Matsumoto, H Ozaki BMC genomics 24 (1), 597, 2023 | | 2023 |
| An efficient gene regulatory network inference algorithm for early Drosophila melanogaster embryogenesis Y Kojima, I Nikaido, S Yaginuma, H Matsumoto, H Kiryu (No Title), 2017 | | 2017 |
| Probabilistic models for haplotype assembly and differentiation analysis H Matsumoto | | |
