Search Results - Ryuichiro Nakato

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  1. 1
    Recent advances in ChIP-seq analysis: from quality management to whole-genome annotation

    Recent advances in ChIP-seq analysis: from quality management to whole-genome annotation by Ryuichiro Nakato, Katsuhiko Shirahige

    Published 2016
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  2. 2
    Methods for ChIP-seq analysis: A practical workflow and advanced applications

    Methods for ChIP-seq analysis: A practical workflow and advanced applications by Ryuichiro Nakato, Toyonori Sakata

    Published 2020
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  3. 3
    <scp>DROMPA</scp>: easy‐to‐handle peak calling and visualization software for the computational analysis and validation of ChIP‐seq data

    <scp>DROMPA</scp>: easy‐to‐handle peak calling and visualization software for the computational analysis and validation of ChIP‐seq data by Ryuichiro Nakato, Takehiko Itoh, Katsuhiko Shirahige

    Published 2013
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  4. 4
    Origin Association of Sld3, Sld7, and Cdc45 Proteins Is a Key Step for Determination of Origin-Firing Timing

    Origin Association of Sld3, Sld7, and Cdc45 Proteins Is a Key Step for Determination of Origin-Firing Timing by Seiji Tanaka, Ryuichiro Nakato, Yuki Katou, Katsuhiko Shirahige, Hiroyuki Araki

    Published 2011
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  5. 5
    Replication-Coupled PCNA Unloading by the Elg1 Complex Occurs Genome-wide and Requires Okazaki Fragment Ligation

    Replication-Coupled PCNA Unloading by the Elg1 Complex Occurs Genome-wide and Requires Okazaki Fragment Ligation by Takashi Kubota, Yuki Katou, Ryuichiro Nakato, Katsuhiko Shirahige, Anne D. Donaldson

    Published 2015
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  6. 6
    Cohesin-dependent chromosome loop extrusion is limited by transcription and stalled replication forks

    Cohesin-dependent chromosome loop extrusion is limited by transcription and stalled replication forks by Kristian Jeppsson, Toyonori Sakata, Ryuichiro Nakato, Stefina Milanova, Katsuhiko Shirahige, Camilla Sjögren

    Published 2022
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  7. 7
    The Deubiquitinating Enzyme USP7 Regulates Androgen Receptor Activity by Modulating Its Binding to Chromatin

    The Deubiquitinating Enzyme USP7 Regulates Androgen Receptor Activity by Modulating Its Binding to Chromatin by Shu-Ting Chen, M. Okada, Ryuichiro Nakato, Kosuke Izumi, Masashige Bando, Katsuhiko Shirahige

    Published 2015
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  8. 8
    Replisome Stability at Defective DNA Replication Forks Is Independent of S Phase Checkpoint Kinases

    Replisome Stability at Defective DNA Replication Forks Is Independent of S Phase Checkpoint Kinases by Giacomo De Piccoli, Yuki Katou, Takehiko Itoh, Ryuichiro Nakato, Katsuhiko Shirahige, Karim Labib

    Published 2012
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  9. 9
    The HSF1–PARP13–PARP1 complex facilitates DNA repair and promotes mammary tumorigenesis

    The HSF1–PARP13–PARP1 complex facilitates DNA repair and promotes mammary tumorigenesis by Mitsuaki Fujimoto, Ryosuke Takii, Eiichi Takaki, Arpit Katiyar, Ryuichiro Nakato, Katsuhiko Shirahige, Akira Nakai

    Published 2017
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  10. 10
    ATF1 Modulates the Heat Shock Response by Regulating the Stress-Inducible Heat Shock Factor 1 Transcription Complex

    ATF1 Modulates the Heat Shock Response by Regulating the Stress-Inducible Heat Shock Factor 1 Transcription Complex by Ryosuke Takii, Mitsuaki Fujimoto, Ke Tan, Eiichi Takaki, Naoki Hayashida, Ryuichiro Nakato, Katsuhiko Shirahige, Akira Nakai

    Published 2014
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  11. 11
    PHi-C: deciphering Hi-C data into polymer dynamics

    PHi-C: deciphering Hi-C data into polymer dynamics by Soya Shinkai, M. NAKAGAWA, Takeshi Sugawara, Yuichi Togashi, Hiroshi Ochiai, Ryuichiro Nakato, Yuichi Taniguchi, Shuichi Onami

    Published 2020
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  12. 12
    Smc5/6-mediated regulation of replication progression contributes to chromosome assembly during mitosis in human cells

    Smc5/6-mediated regulation of replication progression contributes to chromosome assembly during mitosis in human cells by Lina M. Gallego-Paez, Hiroshi Tanaka, Masashige Bando, Motoko Takahashi, Naohito Nozaki, Ryuichiro Nakato, Katsuhiko Shirahige, Toru Hirota

    Published 2013
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  13. 13
    BRCA2 Coordinates the Activities of Cell-Cycle Kinases to Promote Genome Stability

    BRCA2 Coordinates the Activities of Cell-Cycle Kinases to Promote Genome Stability by Keiko Yata, Jean‐Yves Bleuyard, Ryuichiro Nakato, Christine Ralf, Yuki Katou, R. Schwáb, Wojciech Niedźwiedź, Katsuhiko Shirahige, Fumiko Esashi

    Published 2014
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  14. 14
    Condensin targets and reduces unwound DNA structures associated with transcription in mitotic chromosome condensation

    Condensin targets and reduces unwound DNA structures associated with transcription in mitotic chromosome condensation by Takashi Sutani, Toyonori Sakata, Ryuichiro Nakato, Koji Masuda, Mai Ishibashi, Daisuke Yamashita, Yutaka Suzuki, Tatsuya Hirano, Masashige Bando, Katsuhiko Shirahige

    Published 2015
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  15. 15
    PRDM14 Ensures Naive Pluripotency through Dual Regulation of Signaling and Epigenetic Pathways in Mouse Embryonic Stem Cells

    PRDM14 Ensures Naive Pluripotency through Dual Regulation of Signaling and Epigenetic Pathways in Mouse Embryonic Stem Cells by Masashi Yamaji, Jun Ueda, Katsuhiko Hayashi, Hiroshi Ohta, Yukihiro Yabuta, Kazuki Kurimoto, Ryuichiro Nakato, Yasuhiro Yamada, Katsuhiko Shirahige, Mitinori Saitou

    Published 2013
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  16. 16
    Eukaryotic Replisome Components Cooperate to Process Histones During Chromosome Replication

    Eukaryotic Replisome Components Cooperate to Process Histones During Chromosome Replication by Magdalena Foltman, Cécile Evrin, Giacomo De Piccoli, Richard C. Jones, Rick D. Edmondson, Yuki Katou, Ryuichiro Nakato, Katsuhiko Shirahige, Karim Labib

    Published 2013
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  17. 17
    Esco1 Acetylates Cohesin via a Mechanism Different from That of Esco2

    Esco1 Acetylates Cohesin via a Mechanism Different from That of Esco2 by Masashi Minamino, Mai Ishibashi, Ryuichiro Nakato, Kazuhiro Akiyama, Hiroshi Tanaka, Yuki Kato, Lumi Negishi, Toru Hirota, Takashi Sutani, Masashige Bando, Katsuhiko Shirahige

    Published 2015
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  18. 18
    Telomere-binding protein Taz1 controls global replication timing through its localization near late replication origins in fission yeast

    Telomere-binding protein Taz1 controls global replication timing through its localization near late replication origins in fission yeast by Atsutoshi Tazumi, Masayoshi Fukuura, Ryuichiro Nakato, Ami Kishimoto, Tomokazu Takenaka, Shiho Ogawa, Ji-hoon Song, Tatsuro Takahashi, Takuro Nakagawa, Katsuhiko Shirahige, Hisao Masukata

    Published 2012
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  19. 19
    Loop-extruding Smc5/6 organizes transcription-induced positive DNA supercoils

    Loop-extruding Smc5/6 organizes transcription-induced positive DNA supercoils by Kristian Jeppsson, Biswajit Pradhan, Takashi Sutani, Toyonori Sakata, Miki Umeda Igarashi, Davide G. Berta, Takaharu Kanno, Ryuichiro Nakato, Katsuhiko Shirahige, Eugene Kim, Camilla Sjögren

    Published 2024
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  20. 20
    The dynamics of genome replication using deep sequencing

    The dynamics of genome replication using deep sequencing by Carolin A. Müller, Michelle Hawkins, Renata Retkutė, Sunir Malla, R.H. Wilson, Martin Blythe, Ryuichiro Nakato, Makiko Komata, Katsuhiko Shirahige, Alessandro P. S. de Moura, Conrad A. Nieduszynski

    Published 2013
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