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 (86)：

Nakato R. Exploring Contact Distance Distributions with Google Colaboratory. Methods in molecular biology (Clifton, N.J.). 2025
Nagaoka Y, Nakato R. Analysis and Visualization of Multiple Hi-C and Micro-C Data with CustardPy. Methods in molecular biology (Clifton, N.J.). 2025
Eiko SAIJOU, Yoshiko Kamiya, Katsunori Fujiki, Katsuhiko Shirahige, Ryuichiro Nakato. Modulation of Liver Cholesterol Homeostasis by Choline Supplementation During Fibrosis Resolution. Heliyon. 2024. e36727-e36727
Seohyun Lee, Che Lin, Chien-Yu Chen, Ryuichiro Nakato. ChromBERT: Uncovering Chromatin State Motifs in the Human Genome Using a BERT-based Approach. bioRxiv. 2024
Yoshikazu Nagagaki, Yuji Kozakura, Theventhiran Mahandaran, Yukiko Fumoto, Ryuichiro Nakato, Katsuhiko Shirahige, Fuyuki Ishikawa. Histone H3.3 chaperone HIRA renders stress-responsive genes poised for prospective lethal stresses in acquired tolerance. Genes to Cells. 2024

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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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