Author

Ryo Nakaki

Research Center for Advanced Science and Technology, The University of TokyoPrimary ORCID profile (0009-0003-0980-4021 · 7 papers)Unclaimed ORCID profile · follow to get notified of new preprints

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Ryo NakakiiD7 papers · INA Central Hospital

Biology Disciplines

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Genomics· 2 Molecular Biology· 1

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Research Focus:gene regulatory network inference· 3 Organism:human· 3 Approach:statistical model· 3 Assay:ChIP-seq· 2 Research Focus:differential expression· 2 Assay:DNA methylation· 2 Assay:bulk RNA-seq· 1 Research Focus:cell-cell communication· 1

Frequent Co-Authors

Hiroshi KimurâiD· 2 shared Hiroyuki AburataniiD· 2 shared Shuichi Tsutsumi· 2 shared Yasuharu KankiiD· 2 shared Youichiro WadaiD· 2 shared Akashi Izumi-Taguchi· 1 shared Akashi Taguchi· 1 shared Asuka Kamio· 1 shared

Activity by Year

2018-2020 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 33 mutual co-author links

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2 shared papersMolecular Biology

Hiroshi KimurâORCID

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3 papers

Recent·Most cited

Coordinated demethylation of H3K9 and H3K27 is required for rapid inflammatory responses of endothelial cells

Yoshiki Higashijima, Yusuke Matsui, Teppei Shimamura, Ryo Nakaki, Nao Nagai, Shuichi Tsutsumi, Yohei Abe, Verena M. Link, Mizuko Osaka, Masayuki Yoshida, Ryo Watanabe, Toshihiro Tanaka, Akashi Taguchi, Mai Miura, Xiaoan Ruan, , Yasuharu Kanki

The paper shows that KDM7A and UTX demethylate repressive histone marks to enable NF-κB-dependent inflammatory gene activation in endothelial cells.

The EMBO Journal · Mar 3, 2020Peer-reviewedMolecular Biology

Comprehensive epigenome characterization reveals diverse transcriptional regulation across human vascular endothelial cells

Ryuichiro Nakato, Youichiro Wada, Ryo Nakaki, Genta Nagae, Yuki Katou, Shuichi Tsutsumi, Natsu Nakajima, Hiroshi Fukuhara, Atsushi Iguchi, Takahide Kohro, Yasuharu Kanki, Yutaka Saitō, Mika Kobayashi, Akashi Izumi-Taguchi, Naoki Osato, , Katsuhiko Shirahige

The paper characterizes the transcriptomic and epigenomic landscape of nine human endothelial cell types, identifying EC-specific enhancers and marker genes, and highlights the role of HOX genes in vascular development and disease.

Epigenetics & Chromatin · Dec 1, 2019Peer-reviewedGenomics

Integrative analysis of transcription factor occupancy at enhancers and disease risk loci in noncoding genomic regions

Shinya Oki, Tazro Ohta, Go Shioi, Hideki Hatanaka, Osamu Ogasawara, Yoshihiro Okuda, Hideya Kawaji, Ryo Nakaki, Jun Sese, Chikara Meno

The paper integrates public ChIP-seq and DNase-seq data to identify transcription factor interactions and their association with disease risk loci in noncoding regions.

bioRxiv · Apr 9, 2018 · PreprintGenomics