RYUICHIRO NAKATO

ナカトリュウイチロウ | RYUICHIRO NAKATO

Affiliation and department：
Job title： Associate Professor
Homepage URL (2)： https://nakatolab.iqb.u-tokyo.ac.jp/ , https://nakatolab.iqb.u-tokyo.ac.jp/index-e.html

Research field (1)： Systems genomics

Research keywords (8)： Cohesin , Data-driven analysis , 3D genome conformation , Epigenomics , Computational genomics , Single-cell analysis , Hi-C , ChIP-seq

Research theme for competitive and other funds (15)：

2023 - 2027 Comparative single-cell analysis of disease-derived stem cells to identify the cell fate defect on the cell differentiation trajectory
2023 - 2026 The novel roles of nuclear bodies formed by nucleoporin fusion proteins
2020 - 2025 Regulation of Enhanceosome by Cohesin
2021 - 2024 幼年期の脳発達を司る神経細胞種特異的な遺伝子発現調節:コヒーシンの役割
2020 - 2023 Role of Cohesin, a DNA motor, in transcriptional elongation

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Papers (80)：

Gina Miku Oba, Ryuichiro Nakato. Clover: An unbiased method for prioritizing differentially expressed genes using a data-driven approach. Genes to cells : devoted to molecular & cellular mechanisms. 2024
Yuta Uneme, Ryu Maeda, Gen Nakayama, Haruka Narita, Naoki Takeda, Ryuji Hiramatsu, Hidenori Nishihara, Ryuichiro Nakato, Yoshiakira Kanai, Kimi Araki, et al. Morc1 reestablishes H3K9me3 heterochromatin on piRNA-targeted transposons in gonocytes. Proceedings of the National Academy of Sciences of the United States of America. 2024. 121. 13. e2317095121
Nagai LAE, Lee S, Nakato R. Protocol for identifying differentially expressed genes using the RumBall RNA-seq analysis platform. STAR protocols. 2024
Shun Shibata, Shun Endo, Luis A. E. Nagai, Eri H. Kobayashi, Akira Oike, Norio Kobayashi, Akane Kitamura, Takeshi Hori, Yuji Nashimoto, Ryuichiro Nakato, et al. Modeling embryo-endometrial interface recapitulating human embryo implantation. Science Advances. 2024. 10. 8
Jiankang Wang, Ryuichiro Nakato. Churros: a Docker-based pipeline for large-scale epigenomic analysis. DNA research : an international journal for rapid publication of reports on genes and genomes. 2024. 31. 1

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MISC (21)：

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Education (2)：

2005 - 2010 Kyoto University Graduate School of Informatics Department of Intelligence Science of Technology
2000 - 2005 Kyoto University Faculty of Engineering Undergraduate School of Informatics

Professional career (1)：

Ph.D (Informatics) (Kyoto University)

Work history (4)：

2022/07 - 現在 The University of Tokyo Institute for Quantitative Biosciences Associate Professor
2019/04 - 2022/06 The University of Tokyo Institute for Quantitative Biosciences Lecturer
2018/04 - 2019/03 The University of Tokyo Institute for Quantitative Biosciences Research associate
2010/04 - 2018/03 The University of Tokyo Institute of Molecular and Cellular Biosciences Research associate

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