Updated on 2025/01/23

Information

 

写真a

 
Hiroshi Ochiai
 
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Organization
Medical Institute of Bioregulation Medical Research Center for High Depth Omics Professor
Medical Institute of Bioregulation Medical Research Center for High Depth Omics（Concurrent）
Graduate School of Systems Life Sciences Department of Systems Life Sciences（Concurrent）
Graduate School of Medical Sciences Department of Medical Sciences（Concurrent）
Title
Professor
Contact information
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Profile
Gene expression is primarily regulated by transcription. Transcription is now known to be a dynamic process that switches between an activated state, in which RNA is continuously synthesized, and an inactivated state, in which little or no RNA is synthesized. Our research aims to elucidate how transcriptional dynamics are regulated by using genome editing and live cell imaging.
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Research Areas

  • Life Science / System genome science

  • Life Science / Genome biology

Degree

  • PhD (Science) ( 2011.3   Hiroshima University )

Research History

  • Kyushu University Division of Gene Expression Dynamics, Medical Research Center Initiative for High Depth Omics, Medical Institute of Bioregulation Professor

    2023.3 - Present

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  • Hiroshima University Graduate School of Integrated Sciences for Life Associate Professor

    2021.4 - 2023.2

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  • Hiroshima University Graduate School of Integrated Sciences for Life Lecturer

    2019.4 - 2021.3

  • Hiroshima University Graduate School of Science, Department of Mathematical and Molecular Biological Sciences Academic Researcher

    2015.10 - 2019.3

  • Hiroshima University Graduate School of Science Specially Appointed Lecturer

    2013.4 - 2015.9

  • Hiroshima University Research Institute for Radiation Biology and Medicine Assistant Professor

    2012.6 - 2013.3

  • Hiroshima University Research Institute for Radiation Biology and Medicine Academic Researcher

    2011.4 - 2012.5

  • Hiroshima University Graduate School of Science JSPS Research Fellow (DC2)

    2009.4 - 2011.3

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Education

  • Hiroshima University   Graduate School of Science   Department of Mathematical and Molecular Life Sciences

    2008.4 - 2011.3

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    Country： Japan

  • Hiroshima University   Graduate School of Science   Department of Mathematical and Molecular Life Sciences

    2007.4 - 2008.3

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    Country： Japan

    Notes： Completed in one year due to outstanding academic performance.

  • Hiroshima University   Faculty of Science   Department of Biological Sciences

    2003.4 - 2007.3

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    Country： Japan

Research Interests・Research Keywords

  • Research theme：zinc-finger nuclease

    Keyword：zinc-finger nuclease

    Research period： 2024

  • Research theme：TALEN

    Keyword：TALEN

    Research period： 2024

  • Research theme：SNP

    Keyword：SNP

    Research period： 2024

  • Research theme：ES cell

    Keyword：ES cell

    Research period： 2024

  • Research theme：CRISPR

    Keyword：CRISPR

    Research period： 2024

  • Research theme：single cell analysis

    Keyword：single cell analysis

    Research period： 2024

  • Research theme：ゲノム編集

    Keyword：ゲノム編集

    Research period： 2024

  • Research theme：遺伝病

    Keyword：遺伝病

    Research period： 2024

  • Research theme：Gene expression noise

    Keyword：Gene expression noise

    Research period： 2024

  • Research theme：遺伝子挿入

    Keyword：遺伝子挿入

    Research period： 2024

  • Research theme：遺伝子ターゲティング

    Keyword：遺伝子ターゲティング

    Research period： 2024

  • Research theme：pluripotent stem cells

    Keyword：pluripotent stem cells

    Research period： 2024

  • Research theme：一塩基置換

    Keyword：一塩基置換

    Research period： 2024

  • Research theme：Live imaging

    Keyword：Live imaging

    Research period： 2024

  • Research theme：Elucidation of the regulatory mechanism of gene expression dynamics

    Keyword：Gene, Transcription, Live cell imaging, Single-cell analysis, Genome editing

    Research period： 2023.3

Awards

  • 日本エピジェネティクス研究会第１６回年会 奨励賞

    2023.6   日本エピジェネティクス研究会   生細胞単一遺伝子イメージングによる転写動態のエピジェネティック制御機構の解明

    落合 博

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    Award type：Award from Japanese society, conference, symposium, etc.  Country：Japan

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  • Distinguished Researcher

    2021.10   Distinguished Researcher

  • 広島大学大学院統合生命科学研究科 統合生命科学研究科奨励賞

    2021.5   広島大学  

  • 平成28年度 広島大学長表彰

    2016.11  

  • 広島大学エクセレントスチューデント・スカラーシップ

    2008.6  

  • 広島大学理学部長表彰

    2007.3  

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Papers

  • Image Analysis Protocol for DNA/RNA/Immunofluorescence (IF)-seqFISH Data. International journal

    Hiroaki Ohishi, Hiroshi Ochiai

    Methods in molecular biology (Clifton, N.J.)   2856   419 - 432   2025.1   （ ISSN:1064-3745 ）

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    Authorship：Last author,　Corresponding author   Language：English   Publishing type：Research paper (scientific journal)  

    Imaging-based spatial multi-omics technologies facilitate the analysis of higher-order genomic structures, gene transcription, and the localization of proteins and posttranslational modifications (PTMs) at the single-allele level, thereby enabling detailed observations of biological phenomena, including transcription machinery within cells and tissues. This chapter details the principles of such technologies, with a focus on DNA/RNA/immunofluorescence (IF) sequential fluorescence in situ hybridization (seqFISH). A comprehensive step-by-step protocol for image analysis is provided, covering image preprocessing, spot detection, and data visualization. For practical application, complete Jupyter Notebook codes are made available on GitHub ( https://github.com/Ochiai-Lab/seqFISH_analysis ).

    DOI： 10.1007/978-1-0716-4136-1_24

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  • Transcription-coupled changes in genomic region proximities during transcriptional bursting

    Hiroaki Ohishi, Soya Shinkai, owada hitoshi, Takeru Fujii, Kazufumi Hosoda, Shuichi Onami, Takashi Yamamoto, Yasuyuki Ohkawa, Hiroshi Ochiai

    Science Advances   10 ( 49 )   eadn0020   2024.12   （ ISSN:2375-2548 ）

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    Language：English   Publishing type：Research paper (scientific journal)  

    <jats:p>The orchestration of our genes heavily relies on coordinated communication between enhancers and promoters, yet the mechanisms behind this dynamic interplay during active transcription remain unclear. Here, we investigated enhancer-promoter (E-P) interactions in relation to transcriptional bursting in mouse embryonic stem cells using sequential DNA/RNA/immunofluorescence–fluorescence in situ hybridization analyses. Our data reveal that the active state of specific genes is characterized by specific proximities between different genomic regions and the accumulation of transcriptional regulatory factors. Mathematical simulations suggest that an increase in local viscosity could potentially contribute to stabilizing the duration of these E-P proximities. Our study provides insights into the association among E-P proximity, protein accumulation, and transcriptional dynamics, paving the way for a more nuanced understanding of gene-specific regulatory mechanisms.</jats:p>

    DOI： 10.1126/sciadv.adn0020

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  • Anti-phase clustering of regulatory factors shapes gene bursting

    Bitong Li, Yew Yan Wong, Neftali Flores-Rodriguez, Tara Davidson, Matthew Graus, Valeriia Smialkovska, Hiroaki Ohishi, Angelika Feldmann, Hiroshi Ochiai, mathias francois

    bioRxiv   2024.9

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    <jats:title>Abstract</jats:title><jats:p>The ability of stem cells to divide and self-renew depends on a complex choreography of molecular events that maintain the transcriptional oscillation of pluripotency genes. Only a handful of transcription factors (TFs) are necessary to preserve pluripotency and reprogram differentiated cells into stem cells. Paradoxically, while the protein players are known, the challenge remains to decipher the series of steps that TFs undertake to modulate “on” and “off” fluctuations of gene transcription. Here, we use single-molecule tracking combined with the STREAMING-tag transcriptional reporter systems to reveal temporal clustering patterns of endogenous SOX2 occupancy at the<jats:italic>Nanog</jats:italic>locus in relation to its nascent mRNA synthesis in live embryonic stem cells. These patterns distinctively outline multifaceted regulatory behaviours of SOX2 associated with various stages of the<jats:italic>Nanog</jats:italic>transcription cycle. This study exposes that SOX2 clustering activity is out-of-phase with regulatory factors that engage with transcription burst at the<jats:italic>Nanog</jats:italic>gene locus.</jats:p><jats:sec><jats:title>One-sentence summary</jats:title><jats:p>Different types of SOX2 clustering activities modulate<jats:italic>Nanog</jats:italic>transcription burst in pluripotent stem cells.</jats:p></jats:sec>

    DOI： 10.1101/2024.09.10.612363

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  • The relationship between nanoscale genome organization and gene expression in mouse embryonic stem cells during pluripotency transition. Reviewed International journal

    Ximena Garate, Pablo Aurelio Gómez-García, Manuel Fernández Merino, Marta Cadevall Angles, Chenggan Zhu, Alvaro Castells-García, Ilyas Ed-Daoui, Laura Martin, Hiroshi Ochiai, Maria Victoria Neguembor, Maria Pia Cosma

    Nucleic acids research   52 ( 14 )   8146 - 8164   2024.6   （ ISSN:03051048 ）

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    Language：English   Publishing type：Research paper (scientific journal)  

    During early development, gene expression is tightly regulated. However, how genome organization controls gene expression during the transition from naïve embryonic stem cells to epiblast stem cells is still poorly understood. Using single-molecule microscopy approaches to reach nanoscale resolution, we show that genome remodeling affects gene transcription during pluripotency transition. Specifically, after exit from the naïve pluripotency state, chromatin becomes less compacted, and the OCT4 transcription factor has lower mobility and is more bound to its cognate sites. In epiblast cells, the active transcription hallmark, H3K9ac, decreases within the Oct4 locus, correlating with reduced accessibility of OCT4 and, in turn, with reduced expression of Oct4 nascent RNAs. Despite the high variability in the distances between active pluripotency genes, distances between Nodal and Oct4 decrease during epiblast specification. In particular, highly expressed Oct4 alleles are closer to nuclear speckles during all stages of the pluripotency transition, while only a distinct group of highly expressed Nodal alleles are in close proximity to Oct4 when associated with a nuclear speckle in epiblast cells. Overall, our results provide new insights into the role of the spatiotemporal genome remodeling during mouse pluripotency transition and its correlation with the expression of key pluripotency genes.

    DOI： 10.1093/nar/gkae476

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  • Precise immunofluorescence canceling for highly multiplexed imaging to capture specific cell states Reviewed

    Kosuke Tomimatsu, Takeru Fujii, Ryoma Bise, Kazufumi Hosoda, Yosuke Taniguchi, Hiroshi Ochiai, Hiroaki Ohishi, Kanta Ando, Ryoma Minami, Kaori Tanaka, Taro Tachibana, Seiichi Mori, Akihito Harada, Kazumitsu Maehara, Masao Nagasaki, Seiichi Uchida, Hiroshi Kimura, Masashi Narita, Yasuyuki Ohkawa

    Nature Communications   15 ( 1 )   3657   2024.5   （ eISSN:2041-1723 ）

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    DOI： 10.1038/s41467-024-47989-9

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  • Transcription-coupled changes in higher-order genomic structure and transcription hub viscosity prolong enhancer-promoter connectivity

    Hiroaki Ohishi, Soya Shinkai, Hitoshi Owada, Takeru Fujii, Kazufumi Hosoda, Shuichi Onami, Takashi Yamamoto, Yasuyuki Ohkawa, Hiroshi Ochiai

    bioRxiv   -   2023.11

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    Authorship：Last author,　Corresponding author   Language：Others  

    DOI： 10.1101/2023.11.27.568629

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  • Precise immunofluorescence canceling for highly multiplexed imaging capturing specific cell state

    Kosuke Tomimatsu, Takeru Fujii, Ryoma Bise, Kazufumi Hosoda, Yosuke Taniguchi, Hiroshi Ochiai, Hiroaki Ohishi, Kanta Ando, Ryoma Minami, Tachibana Taro, Kaori Tanaka, Seiichi Mori, Akihito Harada, Kazumitsu Maehara, Masao Nagasaki, Seiichi Uchida, Hiroshi Kimura, Masashi Narita, Yasuyuki Ohkawa

    bioRxiv   -   2023.10

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    Language：Others   Publisher：Cold Spring Harbor Laboratory  

    Cell states are regulated by the response of signaling pathways to receptor ligand-binding and inter-cellular interactions. High-resolution imaging has been attempted to explore the dynamics of these processes and, recently, multiplexed imaging has profiled cell states by achieving comprehensive acquisition of spatial protein information from cells. However, resolution is still compromised when visualizing activated signals. Here we developed Precise Emission Canceling Antibody (PECAb) that have cleavable fluorescent labeling. PECAbs allow high-resolution sequential imaging using hundreds of antibodies and allow reconstruction of the spatiotemporal dynamics of signaling pathways. Additionally, combining this approach with seq-smFISH can effectively classify cells and identify their signal activation states in human tissue. Overall, the PECAb system can serve as a comprehensive platform for analyzing complex cell processes.

    DOI： 10.1101/2023.10.17.561810

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  • Organization of transcription and 3D genome as revealed by live-cell imaging Reviewed

    Hiroshi Ochiai, Hiroaki Ohishi, Yuko Sato, Hiroshi Kimura

    Current Opinion in Structural Biology   81   102615 - 102615   2023.5   （ ISSN:0959-440X eISSN:1879-033X ）

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    Authorship：Lead author,　Corresponding author   Language：English   Publisher：Elsevier {BV}  

    DOI： 10.1016/j.sbi.2023.102615

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  • STREAMING-tag system reveals spatiotemporal relationships between transcriptional regulatory factors and transcriptional activity Reviewed International coauthorship

    Hiroaki Ohishi, Seiru Shimada, Satoshi Uchino, Jieru Li, Yuko Sato, Manabu Shintani, Hitoshi Owada, Yasuyuki Ohkawa, Alexandros Pertsinidis, Takashi Yamamoto, Hiroshi Kimura, Hiroshi Ochiai

    Nature Communications   13 ( 1 )   7672   2022.12   （ ISSN:2041-1723 eISSN:2041-1723 ）

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    Authorship：Last author,　Corresponding author   Language：Others   Publishing type：Research paper (scientific journal)   Publisher：Springer Science and Business Media {LLC}  

    STREAMING-tag system reveals spatiotemporal relationships between transcriptional regulatory factors and transcriptional activity

    DOI： 10.1038/s41467-022-35286-2

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  • Ribosomal protein L5 facilitates rDNA-bundled condensate and nucleolar assembly Reviewed International journal

    Haruka Matsumori, Kenji Watanabe, Hiroaki Tachiwana, Tomoko Fujita, Yuma Ito, Makio Tokunaga, Kumiko Sakata-Sogawa, Hiroko Osakada, Tokuko Haraguchi, Akinori Awazu, Hiroshi Ochiai, Yuka Sakata, Koji Ochiai, Tsutomu Toki, Etsuro Ito, Ilya G Goldberg, Kazuaki Tokunaga, Mitsuyoshi Nakao, Noriko Saitoh

    Life Science Alliance   5 ( 7 )   e202101045   2022.3

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    Ribosomal protein L5 facilitates rDNA-bundled condensate and nucleolar assembly
    The nucleolus is the site of ribosome assembly and formed through liquid-liquid phase separation. Multiple ribosomal DNA (rDNA) arrays are bundled in the nucleolus, but the underlying mechanism and significance are unknown. In the present study, we performed high-content screening followed by image profiling with the wndchrm machine learning algorithm. We revealed that cells lacking a specific 60S ribosomal protein set exhibited common nucleolar disintegration. The depletion of RPL5 (also known as uL18), the liquid-liquid phase separation facilitator, was most effective, and resulted in an enlarged and un-separated sub-nucleolar compartment. Single-molecule tracking analysis revealed less-constrained mobility of its components. rDNA arrays were also unbundled. These results were recapitulated by a coarse-grained molecular dynamics model. Transcription and processing of ribosomal RNA were repressed in these aberrant nucleoli. Consistently, the nucleoli were disordered in peripheral blood cells from a Diamond-Blackfan anemia patient harboring a heterozygous, large deletion in RPL5 Our combinatorial analyses newly define the role of RPL5 in rDNA array bundling and the biophysical properties of the nucleolus, which may contribute to the etiology of ribosomopathy.

    DOI： 10.26508/lsa.202101045

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  • iPSC reprogramming-mediated aneuploidy correction in autosomal trisomy syndromes Reviewed International journal

    Silvia Natsuko Akutsu, Tatsuo Miyamoto, Daiju Oba, Keita Tomioka, Hiroshi Ochiai, Hirofumi Ohashi, Shinya Matsuura

    PLoS One   17 ( 3 )   e0264965   2022.3

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    iPSC reprogramming-mediated aneuploidy correction in autosomal trisomy syndromes
    Trisomy 21, 18, and 13 are the major autosomal aneuploidy disorders in humans. They are mostly derived from chromosome non-disjunction in maternal meiosis, and the extra trisomic chromosome can cause several congenital malformations. Various genes on the trisomic chromosomes are intricately involved in the development of disease, and fundamental treatments have not yet been established. However, chromosome therapy has been developed to correct the extra chromosome in cultured patient cells, and it was recently reported that during reprogramming into iPSCs, fibroblasts from a Down syndrome patient lost the extra chromosome 21 due to a phenomenon called trisomy-biased chromosome loss. To gain preliminary insights into the underlying mechanism of trisomy rescue during the early stages of reprogramming, we reprogrammed skin fibroblasts from patients with trisomy syndromes 21, 18, 13, and 9 to iPSC, and evaluated the genomes of the individual iPSC colonies by molecular cytogenetic techniques. We report the spontaneous correction from trisomy to disomy upon cell reprogramming in at least one cell line examined from each of the trisomy syndromes, and three possible combinations of chromosomes were selected in the isogenic trisomy-rescued iPSC clones. Single nucleotide polymorphism analysis showed that the trisomy-rescued clones exhibited either heterodisomy or segmental uniparental isodisomy, ruling out the possibility that two trisomic chromosomes were lost simultaneously and the remaining one was duplicated, suggesting instead that one trisomic chromosome was lost to generate disomic cells. These results demonstrated that trisomy rescue may be a phenomenon with random loss of the extra chromosome and subsequent selection for disomic iPSCs, which is analogous to the karyotype correction in early preimplantation embryos. Our finding is relevant for elucidating the mechanisms of autonomous karyotype correction and future application in basic and clinical research on aneuploidy disorders.

    DOI： 10.1371/journal.pone.0264965

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  • Single-gene imaging links genome topology, promoter–enhancer communication and transcription control Reviewed

    Jieru Li, Angela Hsu, Yujing Hua, Guanshi Wang, Lingling Cheng, Hiroshi Ochiai, Takashi Yamamoto, Alexandros Pertsinidis

    Nature Structural & Molecular Biology   2020.9

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    DOI： 10.1038/s41594-020-0493-6

  • Genome-wide kinetic properties of transcriptional bursting in mouse embryonic stem cells. Reviewed International journal

    Hiroshi Ochiai, Tetsutaro Hayashi, Mana Umeda, Mika Yoshimura, Akihito Harada, Yukiko Shimizu, Kenta Nakano, Noriko Saitoh, Zhe Liu, Takashi Yamamoto, Tadashi Okamura, Yasuyuki Ohkawa, Hiroshi Kimura, Itoshi Nikaido

    Science Advances   6 ( 25 )   eaaz6699   2020.6

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    Authorship：Lead author,　Corresponding author   Language：English   Publishing type：Research paper (scientific journal)  

    DOI： 10.1126/sciadv.aaz6699

  • Insufficiency of ciliary cholesterol in hereditary Zellweger syndrome Reviewed

    Tatsuo Miyamoto, Kosuke Hosoba, Takeshi Itabashi, Atsuko H Iwane, Silvia Natsuko Akutsu, Hiroshi Ochiai, Yumiko Saito, Takashi Yamamoto, Shinya Matsuura

    The EMBO Journal   e103499   2020.5

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    Insufficiency of ciliary cholesterol in hereditary Zellweger syndrome

    DOI： 10.15252/embj.2019103499

  • PHi-C: deciphering Hi-C data into polymer dynamics Reviewed International journal

    Soya Shinkai, Masaki Nakagawa, Takeshi Sugawara, Yuichi Togashi, Hiroshi Ochiai, Ryuichiro Nakato, Yuichi Taniguchi, Shuichi Onami

    NAR Genomics and Bioinformatics   2 ( 2 )   lqaa020   2020.3

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    PHi-C: deciphering Hi-C data into polymer dynamics
    <title>Abstract</title>
    Genomes are spatiotemporally organized within the cell nucleus. Genome-wide chromosome conformation capture (Hi-C) technologies have uncovered the 3D genome organization. Furthermore, live-cell imaging experiments have revealed that genomes are functional in 4D. Although computational modeling methods can convert 2D Hi-C data into population-averaged static 3D genome models, exploring 4D genome nature based on 2D Hi-C data remains lacking. Here, we describe a 4D simulation method, PHi-C (polymer dynamics deciphered from Hi-C data), that depicts 4D genome features from 2D Hi-C data by polymer modeling. PHi-C allows users to interpret 2D Hi-C data as physical interaction parameters within single chromosomes. The physical interaction parameters can then be used in the simulations and analyses to demonstrate dynamic characteristics of genomic loci and chromosomes as observed in live-cell imaging experiments. PHi-C is available at https://github.com/soyashinkai/PHi-C.

    DOI： 10.1093/nargab/lqaa020

  • Role of dynamic nuclear deformation on genomic architecture reorganization Reviewed

    Sungrim Seirin-Lee, Fumitaka Osakada, Junichi Takeda, Satoshi Tashiro, Ryo Kobayashi, Takashi Yamamoto, Hiroshi Ochiai

    PLOS Computational Biology   15 ( 9 )   e1007289 - e1007289   2019.9

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    DOI： 10.1371/journal.pcbi.1007289

  • Single-Molecule Nanoscopy Elucidates RNA Polymerase II Transcription at Single Genes in Live Cells Reviewed

    Jieru Li, Ankun Dong, Kamola Saydaminova, Hill Chang, Guanshi Wang, Hiroshi Ochiai, Takashi Yamamoto, Alexandros Pertsinidis

    Cell   178   491 - 506   2019.5

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    Single-Molecule Nanoscopy Elucidates RNA Polymerase II Transcription at Single Genes in Live Cells

    DOI： 10.1016/j.cell.2019.05.029

  • Dynamic changes in the interchromosomal interaction of early histone gene loci during development of sea urchin Reviewed

    Masaya Matsushita, Hiroshi Ochiai, Ken-ichi T. Suzuki, Sayaka Hayashi, Takashi Yamamoto, Akinori Awazu, Naoaki Sakamoto

    JOURNAL OF CELL SCIENCE   130 ( 24 )   4097 - 4107   2017.12

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    DOI： 10.1242/jcs.206862

  • Ligation-mediated PCR with a back-to-back adapter reduces amplification bias resulting from variations in GC content Reviewed

    Satoru Ishihara, Naoe Kotomura, Naoki Yamamoto, Hiroshi Ochiai

    ANALYTICAL BIOCHEMISTRY   531 ( 15 )   37 - 44   2017.8

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    DOI： 10.1016/j.ab.2017.05.011

  • Simultaneous live imaging of the transcription and nuclear position of specific genes Reviewed

    Hiroshi Ochiai, Takeshi Sugawara, Takashi Yamamoto

    NUCLEIC ACIDS RESEARCH   43 ( 19 )   e127   2015.10

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    Authorship：Lead author,　Corresponding author   Language：English   Publishing type：Research paper (scientific journal)  

    DOI： 10.1093/nar/gkv624

  • The Microtubule-Depolymerizing Activity of a Mitotic Kinesin Protein KIF2A Drives Primary Cilia Disassembly Coupled with Cell Proliferation Reviewed

    Tatsuo Miyamoto, Kosuke Hosoba, Hiroshi Ochiai, Ekaterina Royba, Hideki Izumi, Tetsushi Sakuma, Takashi Yamamoto, Brian David Dynlacht, Shinya Matsuura

    CELL REPORTS   10 ( 5 )   664 - 673   2015.2

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    DOI： 10.1016/j.celrep.2015.01.003

  • Stochastic promoter activation affects Nanog expression variability in mouse embryonic stem cells Reviewed

    Hiroshi Ochiai, Takeshi Sugawara, Tetsushi Sakuma, Takashi Yamamoto

    SCIENTIFIC REPORTS   4   7125   2014.11

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    DOI： 10.1038/srep07125

    Repository Public URL： https://hdl.handle.net/2324/7237095

  • TALEN-mediated single-base-pair editing identification of an intergenic mutation upstream of BUB1B as causative of PCS ( MVA) syndrome Reviewed

    Hiroshi Ochiai, Tatsuo Miyamoto, Akinori Kanai, Kosuke Hosoba, Tetsushi Sakuma, Yoshiki Kudo, Keiko Asami, Atsushi Ogawa, Akihiro Watanabe, Tadashi Kajii, Takashi Yamamoto, Shinya Matsuura

    PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA   111 ( 4 )   1461 - 1466   2014.1

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    Authorship：Lead author   Language：English   Publishing type：Research paper (scientific journal)  

    DOI： 10.1073/pnas.1317008111

  • Repeating pattern of non-RVD variations in DNA-binding modules enhances TALEN activity Reviewed

    Tetsushi Sakuma, Hiroshi Ochiai, Takehito Kaneko, Tomoji Mashimo, Daisuke Tokumasu, Yuto Sakane, Ken-Ichi Suzuki, Tatsuo Miyamoto, Naoaki Sakamoto, Shinya Matsuura, Takashi Yamamoto

    Scientific Reports   3   3379   2013.11

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    DOI： 10.1038/srep03379

  • High efficiency TALENs enable F0 functional analysis by targeted gene disruption in Xenopus laevis embryos Reviewed

    Ken-ichi T. Suzuki, Yukiko Isoyama, Keiko Kashiwagi, Tetsushi Sakuma, Hiroshi Ochiai, Naoaki Sakamoto, Nobuaki Furuno, Akihiko Kashiwagi, Takashi Yamamoto

    BIOLOGY OPEN   2 ( 5 )   448 - 452   2013.5

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    DOI： 10.1242/bio.20133855

  • Efficient TALEN construction and evaluation methods for human cell and animal applications Reviewed

    Tetsushi Sakuma, Sayaka Hosoi, Knut Woltjen, Ken-Ichi Suzuki, Keiko Kashiwagi, Housei Wada, Hiroshi Ochiai, Tatsuo Miyamoto, Narudo Kawai, Yasunori Sasakura, Shinya Matsuura, Yasushi Okada, Atsuo Kawahara, Shigeo Hayashi, Takashi Yamamoto

    Genes to Cells   18 ( 4 )   315 - 326   2013.4

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    DOI： 10.1111/gtc.12037

  • Equarin is involved as an FGF signaling modulator in chick lens differentiation Reviewed

    Xiaohong Song, Yuya Sato, Athary Felemban, Ayako Ito, Mahmud Hossain, Hiroshi Ochiai, Takashi Yamamoto, Kiyotoshi Sekiguchi, Hideaki Tanaka, Kunimasa Ohta

    DEVELOPMENTAL BIOLOGY   368 ( 1 )   109 - 117   2012.8

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    DOI： 10.1016/j.ydbio.2012.05.029

  • Non-transgenic genome modifications in a hemimetabolous insect using zinc-finger and TAL effector nucleases Reviewed

    Takahito Watanabe, Hiroshi Ochiai, Tetsushi Sakuma, Hadley W. Horch, Naoya Hamaguchi, Taro Nakamura, Tetsuya Bando, Hideyo Ohuchi, Takashi Yamamoto, Sumihare Noji, Taro Mito

    NATURE COMMUNICATIONS   3   1017   2012.8

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    Language：English   Publishing type：Research paper (scientific journal)  

    DOI： 10.1038/ncomms2020

  • Zinc-finger nuclease-mediated targeted insertion of reporter genes for quantitative imaging of gene expression in sea urchin embryos Reviewed

    Hiroshi Ochiai, Naoaki Sakamoto, Kazumasa Fujita, Masatoshi Nishikawa, Ken-ichi Suzuki, Shinya Matsuura, Tatsuo Miyamoto, Tetsushi Sakuma, Tatsuo Shibata, Takashi Yamamoto

    PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA   109 ( 27 )   10915 - 10920   2012.7

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    Authorship：Lead author   Language：English   Publishing type：Research paper (scientific journal)  

    DOI： 10.1073/pnas.1202768109

  • Efficient targeted mutagenesis of the chordate Ciona intestinalis genome with zinc-finger nucleases Reviewed

    Narudo Kawai, Hiroshi Ochiai, Tetsushi Sakuma, Lixy Yamada, Hitoshi Sawada, Takashi Yamamoto, Yasunori Sasakura

    DEVELOPMENT GROWTH & DIFFERENTIATION   54 ( 5 )   535 - 545   2012.6

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    Language：English   Publishing type：Research paper (scientific journal)  

    DOI： 10.1111/j.1440-169X.2012.01355.x

  • Targeted disruption of exogenous EGFP gene in medaka using zinc-finger nucleases Reviewed

    Satoshi Ansai, Hiroshi Ochiai, Yuta Kanie, Yasuhiro Kamei, Yuki Gou, Takeshi Kitano, Takashi Yamamoto, Masato Kinoshita

    DEVELOPMENT GROWTH & DIFFERENTIATION   54 ( 5 )   546 - 556   2012.6

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    Language：English   Publishing type：Research paper (scientific journal)  

    DOI： 10.1111/j.1440-169X.2012.01357.x

  • HpSumf1 is involved in the activation of sulfatases responsible for regulation of skeletogenesis during sea urchin development Reviewed

    Tetsushi Sakuma, Kazuya Ohnishi, Kazumasa Fujita, Hiroshi Ochiai, Naoaki Sakamoto, Takashi Yamamoto

    DEVELOPMENT GENES AND EVOLUTION   221 ( 3 )   157 - 166   2011.8

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    Language：English   Publishing type：Research paper (scientific journal)  

    DOI： 10.1007/s00427-011-0368-2

  • Targeted mutagenesis in the sea urchin embryo using zinc-finger nucleases Reviewed

    Hiroshi Ochiai, Kazumasa Fujita, Ken-ichi Suzuki, Masatoshi Nishikawa, Tatsuo Shibata, Naoaki Sakamoto, Takashi Yamamoto

    GENES TO CELLS   15 ( 8 )   875 - 885   2010.8

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    Authorship：Lead author   Language：English   Publishing type：Research paper (scientific journal)  

    DOI： 10.1111/j.1365-2443.2010.01425.x

  • Dicer is Required for the Normal Development of Sea Urchin, Hemicentrotus pulcherrimus Reviewed

    Yuka Okamitsu, Takashi Yamamoto, Takayoshi Fujii, Hiroshi Ochiai, Naoaki Sakamoto

    ZOOLOGICAL SCIENCE   27 ( 6 )   477 - 486   2010.6

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    Language：English   Publishing type：Research paper (scientific journal)  

    DOI： 10.2108/zsj.27.477

  • Role of the Nanos Homolog During Sea Urchin Development Reviewed

    Takayoshi Fujii, Naoaki Sakamoto, Hiroshi Ochiai, Kazumasa Fujita, Yuka Okamitsu, Noriko Sumiyoshi, Takuya Minokawa, Takashi Yamamoto

    DEVELOPMENTAL DYNAMICS   238 ( 10 )   2511 - 2521   2009.10

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    Language：English   Publishing type：Research paper (scientific journal)  

    DOI： 10.1002/dvdy.22074

  • Suppressor of Hairless (Su(H)) is Required for Foregut Development in the Sea Urchin Embryo Reviewed

    Koji Karasawa, Naoaki Sakamoto, Kazumasa Fujita, Hiroshi Ochiai, Takayoshi Fujii, Koji Akasaka, Takashi Yamamoto

    ZOOLOGICAL SCIENCE   26 ( 10 )   686 - 690   2009.10

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    Language：English   Publishing type：Research paper (scientific journal)  

    DOI： 10.2108/zsj.26.686

  • The Ars insulator facilitates I-SceI meganuclease-mediated transgenesis in the sea urchin embryo Reviewed

    Hiroshi Ochiai, Naoaki Sakamoto, Kenichi Suzuki, Koji Akasaka, Takashi Yamamoto

    DEVELOPMENTAL DYNAMICS   237 ( 9 )   2475 - 2482   2008.9

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    Language：English   Publishing type：Research paper (scientific journal)  

    DOI： 10.1002/dvdy.21690

  • Analysis of cis-regulatory elements controlling spatio-temporal expression of T-brain gene in sea urchin, Hemicentrotus pulcherrimus Reviewed

    Hiroshi Ochiai, Naoaki Sakamoto, Asuka Momiyama, Koji Akasaka, Takashi Yamamoto

    MECHANISMS OF DEVELOPMENT   125 ( 1-2 )   2 - 17   2008.1

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    Authorship：Lead author   Language：English   Publishing type：Research paper (scientific journal)  

    DOI： 10.1016/j.mod.2007.10.009

  • MEGA-FISH: multi-omics extensible GPU-accelerated FISH processing framework for huge-scale spatial omics

    Yuma Ito, Kosuke Tomimatsu, Masao Nagasaki, Hiroshi Ochiai, Yasuyuki Ohkawa

    2024.12

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  • In siliconanoscope to study the interplay of genome organization and transcription regulation

    Soundhararajan Gopi, Giovanni B Brandani, Cheng Tan, Jaewoon Jung, Chenyang Gu, Azuki Mizutani, Hiroshi Ochiai, Yuji Sugita, Shoji Takada

    2024.10

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  • Detection of Multiple Fluorescent Dyes Using Liquid Crystal Variable Retarder and Sparse Modeling Reviewed

    Kazuma Fujiwara, Takuya Funatomi, Kazuya Kitano, Yuki Fujimura, Yasuhiro Mukaigawa, Hiroshi Ochiai

    Electronic Imaging   36 ( 15 )   161   2024.1   （ eISSN:2470-1173 ）

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    Authorship：Lead author   Language：Others   Publishing type：Research paper (scientific journal)   Publisher：Society for Imaging Science & Technology  

    Detection of Multiple Fluorescent Dyes Using Liquid Crystal Variable Retarder and Sparse Modeling

    DOI： 10.2352/ei.2024.36.15.coimg-161

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Books

  • 実験医学別冊 最強のステップUPシリーズ エピゲノムをもっと見るためのクロマチン解析実践プロトコール (大川恭行，宮成悠介／編)

    落合 博

    羊土社  2020.12 

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    Responsible for pages：担当ページ数：195-204; 229-232   Language：Others  

  • 実験医学別冊 完全版 ゲノム編集実験スタンダード CRISPR-Cas9の設計・作製と各生物種でのプロトコールを徹底解説 (山本 卓，佐久間哲史／編)

    落合 博

    羊土社  2019.12 

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    Language：Others  

  • 医療応用をめざすゲノム編集 最新動向から技術・倫理的課題まで 真下 知士/金田 安史編

    落合 博（ Role： Sole author）

    化学同人  2018.6 

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    Responsible for pages：総ページ数：274, 担当ページ数：65-75   Language：Others  

  • Genome Editing in Animals

    Hiroshi Ochiai, Takashi Yamamoto

    Springer New York  2017.6 

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    Responsible for pages：担当ページ数：1-24   Language：English  

    Genome Editing in Animals

  • All Aboutゲノム編集 “革命的技術”はいかにして私たちの研究・医療・産業を変えるのか？ 真下知士，山本 卓／編

    落合 博

    羊土社  2016.10 

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    Responsible for pages：総ページ数：234   Language：Japanese  

  • 実験医学別冊「論文だけではわからない ゲノム編集成功の秘訣Q&A―TALEN，CRISPR/Cas9の極意」(山本 卓 編)

    落合 博

    羊土社  2015.11 

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    Language：Others  

  • 実験医学別冊 最強のステップUPシリーズ 今すぐ始めるゲノム編集

    落合 博

    羊土社  2014.3 

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    Responsible for pages：総ページ数：207, 担当ページ数：62-72   Language：English  

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Presentations

  • 空間マルチオミクス技術から明らかにする高次ゲノム構造変化と転写動態の関係性 Invited

    落合 博

    第23回 ⽇本⼼臓⾎管発⽣研究会  2024.12  渡邉 裕介

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    Event date： 2024.12

    Language：Japanese   Presentation type：Oral presentation (invited, special)  

    Venue：淡路夢舞台国際会議場   Country：Japan  

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  • 3D genome architecture and its influence on gene regulation during transcriptional bursting Invited International conference

    Hiroshi Ochiai

    International Symposium: The 3D genome  2024.11 

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    Event date： 2024.11

    Language：English   Presentation type：Oral presentation (invited, special)  

    Venue：Kobe   Country：Japan  

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  • Changes in higher-order genomic structures coupled with transcriptional states in mouse embryonic stem cells International conference

    Hiroshi Ochiai

    The 33rd Hot Spring Harbor International Symposium 2024  2024.10 

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    Event date： 2024.10

    Language：English   Presentation type：Oral presentation (general)  

    Venue：Fukuoka, Japan   Country：Japan  

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  • 転写バーストにおけるヒストンアセチル化の動態変動 Invited

    落合 博

    令和６年遺伝研究会 クロマチン・細胞核構造の動的変換とゲノム機能制御  2024.9 

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    Event date： 2024.9

    Presentation type：Oral presentation (invited, special)  

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  • 空間オミクス技術で切り開く生命現象の高深度理解 Invited

    落合 博

    2024医療・健康ユニットシンポジウム  2024.3 

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    Event date： 2024.3

    Language：Japanese  

    Country：Other  

  • 遺伝子発現における転写バースト ～細胞レベルでの影響と制御機構～ Invited

    落合 博

    第1回WS「未踏探索における個性と集団の役割」  2024.2 

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    Event date： 2024.2

    Language：Japanese  

    Venue：東京   Country：Japan  

  • Regulation of gene expression dynamics in pluripotent stem cells revealed by imaging analysis Invited

    Hiroshi Ochiai

    RIKEN BDR Seminar  2024.1  Ichiro Hiratani

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    Event date： 2024.1

    Language：English   Presentation type：Public lecture, seminar, tutorial, course, or other speech  

    Venue：Kobe, RIKEN BDR   Country：Japan  

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  • 転写バーストサイクル過程で変化する高次ゲノム構造 Invited

    落合 博

    第61回日本生物物理学会年会  2023.11 

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    Event date： 2023.11

    Language：English  

    Venue：名古屋   Country：Japan  

  • Higher-order genomic structures transformed during the transcription burst cycle Invited

    Hiroshi Ochiai

    The 61th Annual Meeting of the Biophysical Society of Japan  2023.11 

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    Event date： 2023.11

    Language：English   Presentation type：Oral presentation (invited, special)  

    Venue：Nagoya   Country：Japan  

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    Other Link： https://www2.aeplan.co.jp/bsj2023/en-index.html

  • Unveiling the dynamics of transcriptional regulation through spatial multimodal molecular imaging Invited International conference

    Hiroshi Ochiai

    The 18th international Symposium of the institute Network for Biomedical Science  2023.10 

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    Event date： 2023.10

    Language：English   Presentation type：Symposium, workshop panel (nominated)  

    Country：Japan  

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  • 高次ゲノム構造とタンパク質凝集体形成による転写動態制御 Invited

    落合 博

    令和５年遺伝研究会 クロマチン・細胞核構造の動的変換とゲノム機能制御  2023.10 

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    Event date： 2023.10

    Language：Japanese   Presentation type：Oral presentation (invited, special)  

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  • Transcriptional dynamics regulation revealed by single gene imaging Invited

    回日本癌学会学術総会

    The 82nd Annual Meeting of the Japanese Cancer Association  2023.9 

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    Event date： 2023.9

    Language：English   Presentation type：Symposium, workshop panel (nominated)  

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  • Chromatin structure and transcriptional dynamics: insights from chromatin tracing Invited

    Hiroshi Ochiai

    UBC Genomics and Genome Engineering Workshop  2023.9 

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    Event date： 2023.9

    Language：English   Presentation type：Oral presentation (invited, special)  

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  • Epigenetic Regulation of Transcriptional Dynamics by Single Gene Imaging in Living Cells Invited

    Hiroshi Ochiai

    The 16th Annual Meeting of the Japanese Society for Epigenetics  2023.6 

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    Event date： 2023.6

    Language：Japanese   Presentation type：Oral presentation (invited, special)  

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  • Higher-order genomic structure changes during the transcriptional bursting Invited

    Hiroshi Ochiai

    The 3rd Hi-C meeting  2023.5 

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    Event date： 2023.5

    Language：Japanese   Presentation type：Oral presentation (invited, special)  

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  • マウス多能性幹細胞における転写動態制御機構の解明 Invited

    落合 博

    第4回ゲノム生物物理学セミナー  2023.3 

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    Event date： 2023.3

    Language：Japanese   Presentation type：Oral presentation (invited, special)  

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  • 遺伝子発現動態の定量的理解 Invited

    落合 博

    定量生物学の会 第十回年会  2022.12 

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    Event date： 2022.12

    Language：Japanese  

    Country：Other  

  • 遺伝子発現動態の定量的理解 Invited

    落合 博

    定量生物学の会 第十回年会  2022.12 

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    Event date： 2022.12

    Language：Japanese   Presentation type：Oral presentation (invited, special)  

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  • Elucidation of the mechanism of transcriptional burst regulation in mammalian cells Invited

    Hiroshi Ochiai

    Center for Novel Model Organism Development Open Seminar: Genome Editing Technical Seminar III  2021.2 

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    Event date： 2021.2

    Presentation type：Oral presentation (invited, special)  

    Venue：Online  

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  • Multimodal chromatin tracing法による転写動態に伴う高次ゲノム構造変化の解明 Invited

    落合 博

    第46回 日本分子生物学会年会  2023.11 

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    Language：English  

    Venue：オンライン   Country：Other  

  • Unveiling transcriptional dynamics in pluripotent stem cells through imaging analysis Invited

    Hiroshi Ochiai

    RIKEN IMS Seminar  2024.2 

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    Language：English  

    Country：Japan  

    Unveiling transcriptional dynamics in pluripotent stem cells through imaging analysis

  • Localization of transcriptional regulator condensates in transcriptional bursting revealed by STREAMING-tag system Invited

    Hiroshi Ochiai

    Cretan RNA Salon Seminar Series  2023.1 

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    Language：Others  

    Country：Other  

    Localization of transcriptional regulator condensates in transcriptional bursting revealed by STREAMING-tag system

  • TALEN-mediated single-base-pair editing reveals the functional significance of an intergenic single nucleotide variant

    International Symposium on RNAi and Genome Editing Research, Tokushima University  2014.3 

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    Language：English  

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    TALEN-mediated single-base-pair editing reveals the functional significance of an intergenic single nucleotide variant

  • TALEN-mediated single-base-pair editing in PCS syndrome

    3rd International Genome Engineering & Genome Editing-2014 Meeting on 'Synthetic Biology to Zinc Finger Nucleases & CRISPRs Regulation', Waltham, MA(USA)  2014.5 

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    Country：Other  

    TALEN-mediated single-base-pair editing in PCS syndrome

  • Stochastic promoter activation affects gene expression variability in murine embryonic stem cells Invited

    Hiroshi Ochiai, Takeshi Sugawara, Tetsushi Sakuma, Takashi Yamamoto

    CSHL meeting, NUCLEAR ORGANIZATION & FUNCTION, CSHL, NY  2014.8 

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    Stochastic promoter activation affects gene expression variability in murine embryonic stem cells

  • 内在遺伝子の核内挙動および転写活性の同時ライブイメージング Invited

    落合 博, 菅原武志, 山本卓

    第32回 染色体ワークショップ・第13回 核ダイナミクス研究会, 広島  2014.12 

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    Language：Japanese  

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  • Simultaneous live-imaging of gene position and its transcriptional activity in mouse embryonic stem cells Invited

    Hiroshi Ochiai, Takeshi Sugawara, Takashi Yamamoto

    4D nucleome, Hiroshima  2014.12 

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    Language：English  

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    Simultaneous live-imaging of gene position and its transcriptional activity in mouse embryonic stem cells

  • ライブイメージングを利用した多能性幹細胞の性質的多様性の理解

    落合 博

    第２５４回 発生研セミナー, 熊本大学  2015.6 

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    Language：Japanese  

    Venue：熊本大学   Country：Other  

  • Simultaneous Live Imaging of the Transcription and Nuclear Position of Specific Genes Invited

    Hiroshi Ochiai

    International Symposium on Chromatin Structure, Dynamics, and Function, Awaji, Japan  2015.8 

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    Language：English  

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    Simultaneous Live Imaging of the Transcription and Nuclear Position of Specific Genes

  • 遺伝子の転写活性と各内局在の同時ライブイメージング

    落合 博

    第七回 光イメージング若手の会「光塾」, 広島大学  2015.9 

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    Language：Japanese  

    Venue：広島大学   Country：Other  

  • Simultaneous live imaging of the transcription and nuclear position of specific genes

    2015 TIC (Transcription Imaging Consortium) meeting, Janelia Research Campus (VA), USA  2015.9 

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    Simultaneous live imaging of the transcription and nuclear position of specific genes

  • 間期細胞核ダイナミクスとヘテロクロマチン領域の集合

    落合 博

    平成２７年度遺伝研研究会 「クロマチン・細胞核構造の形成とダイナミクスによるゲノム機能制御」  2015.10 

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    Language：Japanese  

    Country：Other  

  • Simultaneous live imaging of a specific gene's transcription and dynamics.

    Ochiai H, Sugawara T, Yamamoto T

    2015.12 

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    Language：English  

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    Simultaneous live imaging of a specific gene's transcription and dynamics.

  • Active nuclear dynamics promotes heterochromatin clustering Invited

    The 4th International Symposium of the Mathematics on Chromatin Live Dynamics  2015.12 

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    Active nuclear dynamics promotes heterochromatin clustering

  • Relationship between nuclear dynamics and gene expression noise in pluripotent stem cell

    Hiroshi Ochiai

    2016.6 

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    Language：English  

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    Relationship between nuclear dynamics and gene expression noise in pluripotent stem cell

  • A challenging interdisciplinary approach to elucidate a mystery of remodeling process in nuclear architecture (Part II: Experiment)

    Hiroshi Ochiai

    JSMB2016  2016.9 

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    Language：English  

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    A challenging interdisciplinary approach to elucidate a mystery of remodeling process in nuclear architecture (Part II: Experiment)

  • Single Base Pair Genome-Editing Technology and Its Future Applications

    2016.10 

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    Single Base Pair Genome-Editing Technology and Its Future Applications

  • Dynamic nuclear deformation induces nuclear architecture remodeling

    Hiroshi Ochiai, Seirin S. Lee

    2016.11 

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    Dynamic nuclear deformation induces nuclear architecture remodeling

  • 細胞核の動的変形による核構造の再編成 Invited

    落合 博

    第34回 染色体ワークショップ 第15回 核ダイナミクス研究会  2017.1 

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    Language：Japanese  

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  • 特定内在遺伝子の転写活性および核内局在のライブイメージング

    落合 博

    産総研 中国センター シンポジウム ~生命科学の革新的展開~  2017.2 

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    Language：Japanese  

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  • 多能性幹細胞における遺伝子発現量多様性の制御機構

    落合 博

    日本大学文理学部生命科学科セミナー 細胞核機能の発現と制御  2017.6 

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    Language：Japanese  

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  • Relationship between kinetics of higher-order genomic structure and transcriptional activity

    2017.9 

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    Relationship between kinetics of higher-order genomic structure and transcriptional activity

  • 高次ゲノム構造の核内動態と転写活性との関係

    落合 博

    2017年度生命科学系学会合同年次大会（ConBio2017）  2017.12 

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    Language：Japanese  

    Venue：神戸   Country：Other  

  • マウス胚性幹細胞における内因性遺伝子発現ノイズの制御機構の包括的解析

    落合 博, 梅田 茉奈, 林 哲太郎, 芳村 美佳, 原田 哲仁, 大川 恭行, 山本 卓, 二階堂 愛

    第12回日本エピジェネティクス研究会年会  2018.5 

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    Language：Japanese  

    Venue：かでる2・7（北海道⽴道⺠活動センター）   Country：Other  

  • ゲノム編集技術の応用から探るゲノム高次構造

    落合 博

    第18回日本抗加齢医学会総会  2018.5 

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    Language：Japanese  

    Venue：大阪国際会議場   Country：Other  

  • マウス胚性幹細胞における遺伝子発現量多様性の制御機構の包括的解析

    落合 博

    第91回日本生化学会大会  2018.9 

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    Country：Other  

  • 細胞多様性決定要因の網羅解析技術の開発

    落合 博

    第41回日本分子生物学会年会  2018.11 

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  • ゲノム構造再編成における動的核変形の役割

    落合 博, 李 聖林, 小坂田 文隆, 竹田 淳一

    第41回日本分子生物学会年会  2018.11 

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  • 転写バーストに由来する遺伝子発現量多様性

    落合 博, 林哲太郎, 梅田茉奈, 芳村美佳, 原田哲仁, 新井哲也, 中野堅太, 清水有紀子, 山本 卓, 岡村匡史, 大川恭行, 二階堂愛

    第36回 染色体ワークショップ・第17回 核ダイナミクス研究会  2019.1 

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  • CRISPR ライブラリスクリーニングによる転写バースト関連遺伝子の探索

    落合 博, 山本 卓

    日本ゲノム編集学会 第４回大会  2019.6 

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    Language：English  

    Venue：東京   Country：Other  

  • Transcriptional bursting induces gene expression heterogeneity in mouse embryonic stem cells Invited International conference

    Hiroshi Ochiai

    Single Molecule & Chromatin Symposium  2019.11 

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    Transcriptional bursting induces gene expression heterogeneity in mouse embryonic stem cells

  • Transcriptional bursting induces gene expression heterogeneity in mES cells Invited International conference

    Hiroshi Ochiai

    Chromosome Dynamics 2019  2019.12 

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    Transcriptional bursting induces gene expression heterogeneity in mES cells

  • 分子の動きを「見る」ためのゲノム編集技術 Invited

    落合 博

    第4回 広島大学先端科学セミナー「“ゲノム編集”で未来社会を拓く」  2020.12 

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    Language：Others  

    Country：Other  

  • クロマチン潜在能による転写バースト制御 Invited

    第43回日本分子生物学会年会  2020.12 

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    Venue：オンライン   Country：Other  

  • CRISPR-Cas9 による原始内胚葉分化レポーターマウス胚性幹細胞の樹立

    大和田 一志, 落合 博, 山本 卓

    日本ゲノム編集学会第６回大会  2021.6 

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    Language：Others  

    Venue：オンライン   Country：Other  

  • Single-gene imaging reveals the relationship between the transcriptional activity of single genes and the formation of transcriptional regulatory factor clusters

    Hiroaki Ohishi, Seiru Shimada, Satoshi Uchino, Li Jieru, Yuko Sato, Alexandros Pertsinidis, Takashi Yamamoto, Hiroshi Kimura, Hiroshi Ochiai.

    Cold Spring Harbor Laboratory Meeting, Mechanisms of Eukaryotic Transcription  2021.8 

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    Language：Others  

    Country：Other  

    Single-gene imaging reveals the relationship between the transcriptional activity of single genes and the formation of transcriptional regulatory factor clusters

  • Relationship between higher-order genome structural dynamics and transcriptional dynamics Invited

    Hiroshi Ochiai

    2021.9 

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    Language：Others  

    Country：Other  

    Relationship between higher-order genome structural dynamics and transcriptional dynamics

  • 遺伝子発現量の細胞間多様性を誘引する転写バースト制御機構の解明 Invited

    落合 博

    東大黒田研究室セミナー  2021.11 

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    Language：Others  

    Venue：オンライン   Country：Other  

  • Genome-wide kinetic properties of transcriptional bursting revealed by single cell analysis Invited

    Hiroshi Ochiai

    The 2nd ASHBi SignAC Workshop, Integrating Single-cell Analysis and Mathematics  2021.12 

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    Language：Others  

    Country：Other  

    Genome-wide kinetic properties of transcriptional bursting revealed by single cell analysis

  • STREAMING-tag system: A novel technology to analyze the spatiotemporalrelationship between transcriptional regulators and transcriptionaldynamics at the single gene level Invited

    Hiroshi Ochiai

    The 30th Hot Spring Harbor International Symposium -Chromatin Potential in Development and Differentiation -  2022.1 

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    Language：Others  

    Country：Other  

    STREAMING-tag system: A novel technology to analyze the spatiotemporalrelationship between transcriptional regulators and transcriptionaldynamics at the single gene level

  • 超解像イメージングから解き明かす転写動態と転写制御因子クラスターの関係性 Invited

    落合 博

    日本顕微鏡学会 第78回学術講演会  2022.5 

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    Language：Others  

    Venue：郡山   Country：Other  

  • イメージングによる転写動態制御機構の解明 Invited

    落合 博

    国⽴遺伝学研究所研究会「染⾊体安定維持研究会」  2022.7 

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    Language：Others  

    Venue：三島   Country：Other  

  • 高次ゲノム構造と転写ダイナミクス Invited

    落合 博

    一般財団法人 染色体学会 第73 回（2022 年度）年会  2022.10 

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    Language：Others  

    Venue：Online   Country：Other  

  • 高次ゲノム構造と転写の動態 Invited

    落合 博

    令和4年遺伝研究会 クロマチン・細胞核構造の動的変換とゲノム機能制御  2022.10 

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    Language：Others  

    Venue：国立遺伝学研究所   Country：Other  

  • Revealing regulatory mechanisms of transcriptional dynamics by single-gene imaging system Invited

    Hiroshi Ochiai

    Single Molecule & Chromatin meeting 2022  2022.11 

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    Language：Others  

    Country：Other  

    Revealing regulatory mechanisms of transcriptional dynamics by single-gene imaging system

  • 遺伝子発現動態の定量的理解 Invited

    落合 博

    定量生物学の会 第十回年会  2022.12 

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    Language：Others  

    Venue：広島大学東広島キャンパス 学士会館   Country：Other  

  • 単一遺伝子イメージングから解き明かす転写活性依存的な転写制御因子凝集体の形成 Invited

    第45回日本分子生物学会年会  2022.12 

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    Language：Others  

    Venue：幕張メッセ、千葉   Country：Other  

  • Transcriptional dynamics regulated by non-genomic codes Invited

    Hiroshi Ochiai

    The 1st International Symposium on REPLICATION of NON GENOME  2022.12 

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    Language：Others  

    Country：Other  

    Transcriptional dynamics regulated by non-genomic codes

  • Higher-order genomic structure and transcriptional dynamics Invited

    Hiroshi Ochiai

    The 73rd Annual Meeting of the Society of Chromosome Research in 2022  2022.10  The Society of Chromosome Research

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    Venue：Online  

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  • 高次ゲノム構造と転写の動態 Invited

    落合 博

    令和4年遺伝研究会 クロマチン・細胞核構造の動的変換とゲノム機能制御  2022.10  前島 一博、落合 博

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    Venue：国立遺伝学研究所  

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  • 遺伝子発現動態の定量的理解 Invited

    落合 博

    定量生物学の会 第十回年会  2022.12  粟津 暁紀, 落合 博, 斉藤 稔, 高木 拓明, 藤井 雅史, 本田 直樹, 渡邊 千穂

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    Venue：広島大学東広島キャンパス 学士会館  

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  • Relationship between Transcriptional Dynamics and Clusters of Transcriptional Regulators Revealed by Super-Resolution Imaging Invited

    Hiroshi Ochiai

    The 78th Annual Meeting of The Japanese Society of Microscopy  2022.5  The Japanese Society of Microscopy

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    Venue：Koriyama, Fukushima  

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  • Transcriptional activity-dependent formation of transcriptional regulatory factor condensate revealed by single gene imaging Invited

    Hiroshi Ochiai

    The 45th Annual Meeting of the Molecular Biology Society of Japan  2022.12  Tatsuo Fukagawa

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    Venue：Makuhari Messe, Chiba  

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  • イメージングによる転写動態制御機構の解明 Invited

    落合 博

    国⽴遺伝学研究所研究会「染⾊体安定維持研究会」  2022.7  鐘巻将⼈，⾼橋達郎，平谷伊智朗, 大学保一

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    Venue：三島  

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  • Unveiling transcriptional dynamics in pluripotent stem cells through imaging analysis Invited

    Hiroshi Ochiai

    RIKEN IMS Seminar  2024.2  Haruhiko Koseki

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    Language：English   Presentation type：Public lecture, seminar, tutorial, course, or other speech  

    Venue：RIKEN IMS   Country：Japan  

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  • Transcriptional dynamics regulated by non-genomic codes Invited

    Hiroshi Ochiai

    The 1st International Symposium on REPLICATION of NON GENOME  2022.12  Makoto Nakanishi

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    Venue：Ito Hall, The University of Tokyo  

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  • The impact of transcription-coupled viscosity changes on enhancer-promoter interactions Invited

    Hiroshi Ochiai

    The 77th Annual Meeting of the Japan Society for Cell Biology  2024.7 

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    Language：English   Presentation type：Oral presentation (invited, special)  

    Venue：Tsukuba   Country：Japan  

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  • STREAMING-tag system: A novel technology to analyze the spatiotemporalrelationship between transcriptional regulators and transcriptionaldynamics at the single gene level Invited

    Hiroshi Ochiai

    The 30th Hot Spring Harbor International Symposium -Chromatin Potential in Development and Differentiation -  2022.1  Yasuyuki Ohkawa, Hiroshi Kimura, Noriko Saitoh

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    Venue：Online  

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  • Revealing regulatory mechanisms of transcriptional dynamics by single-gene imaging system Invited

    Hiroshi Ochiai

    Single Molecule & Chromatin meeting 2022  2022.11  Mathias Francois, Elizabeth Hinde

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    Venue：Sydney, Australia  

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  • Changes in higher-order genomeic structures during transcriptional dynamics revealed by multimodal chromatin tracing Invited

    Hiroshi Ochiai

    The 46th Annual Meeting of the Molecular Biology Society of Japan  2023.11  Yasuyuki Ohkawa, Stasevich Timothy

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    Language：English   Presentation type：Symposium, workshop panel (nominated)  

    Venue：online  

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  • Localization of transcriptional regulator condensates in transcriptional bursting revealed by STREAMING-tag system Invited

    Hiroshi Ochiai

    Cretan RNA Salon Seminar Series  2023.1  Evgenia Ntini

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    Venue：Zoom online  

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MISC

  • 創薬研究を加速する空間オミクス技術 Invited

    落合 博, 大川 恭行

    実験医学増刊 あなたのラボから薬を生み出す アカデミア創薬の実践 All JAPAN体制の先端技術支援を利用した創薬の最前線   42 ( 2 )   2024.1

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    Authorship：Lead author,　Corresponding author   Language：Japanese   Publishing type：Article, review, commentary, editorial, etc. (scientific journal)  

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  • Facilitating genome function understanding using genome editing dependent bioimaging techniques

    Hiroshi Ochiai

    Gene and Genome Editing   5   100022   2023.6

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    Authorship：Lead author,　Corresponding author   Language：English   Publishing type：Article, review, commentary, editorial, etc. (scientific journal)  

    DOI： 10.1016/j.ggedit.2022.100022

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  • 特定RNA分子／DNA領域のライブイメージング技術 Invited

    大石裕晃, 落合 博

    生体の科学   74 ( 3 )   260 - 265   2023.6

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    Authorship：Last author,　Corresponding author   Language：Japanese   Publishing type：Article, review, commentary, editorial, etc. (trade magazine, newspaper, online media)   Publisher：医学書院  

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  • Fluctuation and Biological Function Invited

    Hiroshi Ochiai

    The Cell   55 ( 3 )   2023.2

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    Language：Japanese   Publisher：HOKURYUKAN  

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  • STREAMING-Tag System: Technology to Enable Visualization of Transcriptional Activity and Subnuclear Localization of Specific Endogenous Genes

    Hiroaki Ohishi, Hiroshi Ochiai

    Methods in Molecular Biology   2577   103 - 122   2022.9   （ ISSN:1064-3745 ISBN:9781071627235, 9781071627242 ）

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    Language：English   Publisher：Springer {US}  

    DOI： 10.1007/978-1-0716-2724-2_8

    Scopus

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  • CRISPR-Cas9システムによる特定遺伝子座ライブイメージング

    大石 裕晃, 落合 博

    実験医学   2021.5

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    Language：Japanese  

    CRISPR-Cas9システムを利用したゲノム編集技術は、基礎研究利用に留まらず、医療応用や、有用畜産物の作出など、広く革新をもたらしている。一方で、DNAを切断しないCas9変異体を用いることで、ゲノム編集とは異なる応用も可能である。その1つが、CRISPR-Cas9システムを利用した特定遺伝子座のライブイメージングである。本稿では、特定ゲノム領域の可視化の意義、CRISPR-Cas9による生細胞イメージングのツールボックス、さらに本技術を利用した応用研究を紹介し、今後の展望も踏まえて議論する。(著者抄録)

  • 哺乳類細胞における転写バーストの網羅解析：遺伝子発現量の細胞間多様性の理解に向けて

    生物物理   2021.5

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    Language：Japanese  

    DOI： 10.2142/biophys.61.171

  • ライブイメージングによる1細胞動態解析

    大石 裕晃, 落合 博

    医学のあゆみ   2021.3

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    Language：Japanese  

    光学顕微鏡が普及し、肉眼では見えない細胞などの微細構造を観察できるようになり、多くの新しい生命現象の発見を支えてきた。とくに蛍光顕微鏡とその関連技術は、培養細胞のみならず、厚い組織切片、オルガノイド、生体などにおいて、特定分子の細胞内"動態"や発現量の"経時的変化"の測定を可能にし、創薬や病因同定などの医学分野にも深く関係している。本稿では、蛍光の原理および、1細胞レベルでのライブイメージングに用いられる蛍光顕微鏡、およびその派生技術である共焦点顕微鏡、多光子励起顕微鏡、ライトシート顕微鏡について解説する。さらに、1細胞レベルでの動態解析の重要性、蛍光ラベル化法、疾患オルガノイドを例にした医療への応用について解説する。(著者抄録)

  • CRISPR ライブラリーを利用した機能解析

    落合 博

    月刊「細胞」   2019.2

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    Language：Japanese  

  • 高次クロマチン構造のライブイメージング

    落合 博

    生体の科学   2017.6

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    Language：Japanese  

    DOI： 10.11477/mf.2425200621

  • 新規一塩基置換導入法による高発がん性遺伝病の原因変異の同定

    落合 博, 松浦 伸也

    医学のあゆみ   2015.1

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    Language：Japanese  

  • Efficient TALEN construction and evaluation methods for human cell and animal applications Reviewed

    Tetsushi Sakuma, Sayaka Hosoi, Knut Woltjen, Ken-ichi Suzuki, Keiko Kashiwagi, Housei Wada, Hiroshi Ochiai, Tatsuo Miyamoto, Narudo Kawai, Yasunori Sasakura, Shinya Matsuura, Yasushi Okada, Atsuo Kawahara, Shigeo Hayashi, Takashi Yamamoto

    GENES TO CELLS   2013.4

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    Language：English  

    DOI： 10.1111/gtc.12037

  • ゲノム編集技術を用いた遺伝子発現の定量的イメージング

    落合 博, 柴田達夫, 山本 卓

    細胞工学   2013.4

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    Language：Japanese  

  • TALE nuclease (TALEN)を用いた培養細胞におけるゲノム編集

    落合 博, 佐久間哲史, 松浦伸也, 山本 卓

    実験医学   2013.1

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    Language：English  

  • 創薬研究を加速する空間オミクス技術

    落合 博, 大川 恭行

    実験医学増刊 あなたのラボから薬を生み出す アカデミア創薬の実践 All JAPAN体制の先端技術支援を利用した創薬の最前線   2024.1

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    Language：Japanese  

  • ヒト培養細胞における1本鎖DNAを用いた簡便な放射線感受性候補SNP導入法の開発

    宮本 達雄, 柳原 啓見, 落合 博, 山本 卓, 松浦 伸也

    広島医学   2016.4

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    Language：Japanese  

  • ゲノム編集法を用いた放射線感受性の個人差を規定する遺伝的素因の同定

    宮本 達雄, Royba Ekaterina, Akutsu Silvia Natsuko, 柳原 啓見, 落合 博, 工藤 美樹, 田代 聡, 山本 卓, 松浦 伸也

    放射線生物研究   2015.9

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    Language：Japanese  

  • Genome editing using zinc-finger nucleases (ZFNs) and transcription activator-like effector nucleases (TALENs) Reviewed

    Hiroshi Ochiai, Takashi Yamamoto

    Targeted Genome Editing Using Site-Specific Nucleases: ZFNs, TALENs, and the CRISPR/Cas9 System   2015.1

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    Language：English  

    DOI： 10.1007/978-4-431-55227-7_1

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Industrial property rights

Patent   Number of applications: 0   Number of registrations: 0
Utility model   Number of applications: 0   Number of registrations: 0
Design   Number of applications: 0   Number of registrations: 0
Trademark   Number of applications: 0   Number of registrations: 0

Professional Memberships

  • THE BIOPHYSICAL SOCIETY OF JAPAN

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  • THE MOLECULAR BIOLOGY SOCIETY OF JAPAN

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  • The Japanese society for Genome Editing

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  • The Japanese Society for Epigenetics

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Committee Memberships

  • The Japanese Society for Genome Editing   Member, Future Planning Committee  

    2024.8 - 2026.6   

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    Committee type：Academic society

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  • 8th Annual Meeting of the Japanese Society for Genome Editing   Conference Preparation Committee  

    2022.10 - 2023.6   

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    Committee type：Other

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  • 日本ゲノム編集学会   日本ゲノム編集学会 選挙管理委員長  

    2022.3 - 2022.4   

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    Committee type：Academic society

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  • Associate Editor of Journal of Biochemistry  

    2022.1 - 2024.12   

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    Committee type：Academic society

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  • Ministry of Education, Culture, Sports, Science and Technology - Japan   Senior Scientific Research Specialist, Grants-in-Aid for Scientific Research (KAKENHI)  

    2021.8 - 2023.7   

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    Committee type：Government

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Academic Activities

  • EMBO Laboratory Leadership Course 2024 in Fukuoka International contribution

    Role(s)： Planning, management, etc.

    EMBO Solutions, EMBO Solutions Women in Science Japan (WiSJ)  （ Fukuoka International Congress Center ） 2024.11

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    Type：Academic society, research group, etc. 

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  • 令和６年遺伝研究会 クロマチン・細胞核構造の動的変換とゲノム機能制御

    Role(s)： Planning, management, etc.

    前島 一博, 落合 博  2024.9

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    Type：Academic society, research group, etc. 

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  • Organizing Symposium 2SBP "Higher-order structural fluctuations in the genome and their functions". International contribution

    Role(s)： Planning, management, etc.

    Hiroshi Ochiai,Soya Shinkai  （ Nagoya ） 2023.11

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    Type：Competition, symposium, etc. 

    Genomic DNA contains the information necessary for the development and maintenance of living organisms, and forms cell-type-specific higher-order structures while exhibiting dynamic behavior. Recent studies, which employ live-cell imaging and mathematical and physical simulations, have revealed that these fluctuations in higher-order genomic structure play biological roles. In this symposium, experts in the field will present their latest research findings and discuss the functions of fluctuations in higher-order genomic structures.

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  • 令和５年遺伝研究会 クロマチン・細胞核構造の動的変換とゲノム機能制御

    Role(s)： Planning, management, etc.

    前島 一博,落合 博  （ 国立遺伝学研究所 ） 2023.10

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    Type：Academic society, research group, etc. 

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  • 不明

    ワークショップ S2「基礎技術セッション」の開催  2023.6 - Present

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    Type：Competition, symposium, etc. 

  • 不明

    新学術領域・学術変革A合同 若手の会 2022  （ SORA-RINKU (大阪) ） 2022.10 - 2022.11

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    Type：Competition, symposium, etc. 

  • 令和4年遺伝研究会 クロマチン・細胞核構造の動的変換とゲノム機能制御

    Role(s)： Planning, management, etc.

    前島 一博,落合 博  （ 国立遺伝学研究所 ） 2022.10

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    Type：Academic society, research group, etc. 

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  • Journal of Biochemistry International contribution

    2022.1 - 2024.12

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    Type：Academic society, research group, etc. 

  • 不明

    第39回染色体ワークショップ・第20回核ダイナミクス研究会  （ オンライン ） 2021.12

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    Type：Competition, symposium, etc. 

  • 文部科学省 学術調査官（科学研究費補助金担当）

    Role(s)： Review, evaluation

    文部科学省 研究振興局  2021.8 - 2023.7

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    Type：Scientific advice/Review 

  • 不明

    ワークショップ 1PW-04「1細胞解析から紐解くクロマチンポテンシャル」の開催  （ オンライン ） 2020.12

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    Type：Competition, symposium, etc. 

  • 企画立案・運営等

    ワークショップ「クロマチン動態のイメージング・定量解析による核機能理解」の開催  2017.12

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    Type：Competition, symposium, etc. 

  • 企画立案・運営等

    シンポジウム「ゲノム機能制御の多階層的理解 ~クロマチンの分子構造から核内動態まで~」の開催  （ 神戸ポートピアホテル ） 2017.9

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    Type：Competition, symposium, etc. 

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Research Projects

  • 哺乳類初期発生における細胞可塑性を制御するエピコードの解読

    Grant number：24H02326  2024 - 2028

    日本学術振興会・文部科学省  科学研究費助成事業  学術変革領域研究(A)

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    Authorship：Principal investigator  Grant type：Scientific research funding

  • マルチモーダル時空間統合オミクス解析による哺乳類細胞運命制御基盤の理解

    2023 - 2028

    戦略的創造研究推進事業 (文部科学省)

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    Authorship：Principal investigator  Grant type：Contract research

  • 転写動態制御を担うゲノムモダリティ要因の理解

    Grant number：23H04286  2023 - 2024

    日本学術振興会・文部科学省  科学研究費助成事業  学術変革領域研究(A)

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    Authorship：Principal investigator  Grant type：Scientific research funding

  • 高次定量イメージングによる転写動態制御機構の解明

    2023

    自然科学研究助成

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    Authorship：Principal investigator  Grant type：Contract research

  • 転写活性状態を制御する高次ゲノム構造形成因子の同定

    2023

    公益財団法人 武田科学振興財団 生命科学研究助成

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    Authorship：Principal investigator  Grant type：Contract research

  • 高次ゲノム構造動態と遺伝子発現の連関解明

    Grant number：22H02609  2022 - 2024

    日本学術振興会  科学研究費助成事業  基盤研究(B)

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    Grant type：Scientific research funding

  • 姉妹染色分体間の非ゲノム情報複製と転写動態の連関性解明

    Grant number：22H04694  2022 - 2023

    日本学術振興会・文部科学省  科学研究費助成事業  新学術領域研究（研究領域提案型）

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    Grant type：Scientific research funding

  • Elucidation of the factors controlling genome modality in the determination of inactive X chromosome

    Grant number：21H05753  2021 - 2022

    Japan Society for the Promotion of Science・Ministry of Education, Culture, Sports, Science and Technology  Grants-in-Aid for Scientific Research  Grant-in-Aid for Transformative Research Areas (A)

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    Grant type：Scientific research funding

    CiNii Research

  • 細胞ポテンシャル測定システムの開発

    2020 - 2021

    科学技術振興費(主要5分野) (文部科学省)

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    Grant type：Contract research

  • 高次ゲノム構造が織りなす複雑な遺伝子発現制御動態の解明

    Grant number：19K06612  2019 - 2021

    日本学術振興会  科学研究費助成事業  基盤研究(C)

    落合 博

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    Grant type：Scientific research funding

    マウスES細胞において多能性維持に重要なNanog遺伝子は相互作用するゲノム領域が多数且つ広範囲に散在する、極めて特異な性質を有している。本研究では、マウスES細胞におけるNanogの転写活性化と相互作用領域との関係性を明らかにするために、CRISPRライブラリを用いてNanogの転写調節に関わるゲノム領域を同定し、さらにsequential-FISHおよび独自に確立した特定遺伝子の核内局在および転写活性の可視化技術の改良法によって、高次ゲノム構造動態と遺伝子発現制御の関係理解を目指す。

    CiNii Research

  • 増幅遺伝子のコピー数の制御機構の解明

    Grant number：19K22566  2019 - 2020

    日本学術振興会  科学研究費助成事業  挑戦的研究（萌芽）

    古川 龍彦, 南 謙太朗, 大槻 純男, 落合 博, 中岡 博史

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    Grant type：Scientific research funding

    がん細胞では特定の遺伝子領域が増える遺伝子増幅という現象が知られている。正常なゲノムでも遺伝子のコピー数の変異(CNV)が12000程度が知られており、CNVは遺伝子多型の一種と考えられるが、悪性腫瘍での異常なコピー数の増加は正常細胞ではみられず監視機構の存在が想像される。
    我々が単離した抗がん剤ゲムシタビン(GEM)耐性細胞では特定の遺伝子が増幅して耐性化している。BHLHE41をこの細胞に発現させるとRRM1のコピー数が減少して、GEM耐性が減弱した。
    増幅ゲノムに結合する分子群とBHLHE41で誘導される分子群について調べて遺伝子のコピー数を制限する分子機構について解明する。

    CiNii Research

  • Elucidation of chromatin regulation by nuclear RNA bodies

    Grant number：18H05531  2018.6 - 2023.3

    Grants-in-Aid for Scientific Research  Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)

    SAITOH Noriko

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    Grant type：Scientific research funding

    In the cell nucleus, many RNA bodies are formed based on non-coding RNAs that are act as "seeds." This study revealed the molecular mechanisms of the ELEANOR RNA cloud formed in the nucleus of hormone-dependent breast cancer cells. It also focused on the nucleolus which is the largest nuclear RNA body. Specifically, we have elucidated that, in breast cancer, the ELEANOR non-coding RNAs regulate transcription of multiple genes within the ELEANOR-TAD (topologically associated domains) that is a mega base-scale chromatin domain. ELEANOR also mediates long-range chromatin interactions to equilibrate between cancer cell proliferation and apoptosis.

    CiNii Research

  • 核内RNAボディによるクロマチン制御機構の解明

    2018 - 2022

    日本学術振興会・文部科学省  科学研究費助成事業  新学術領域研究（研究領域提案型）

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    Grant type：Scientific research funding

  • 遺伝子発現制御と高次ゲノム構造動態の関係解明

    Grant number：16H01407  2016 - 2017

    日本学術振興会・文部科学省  科学研究費助成事業  新学術領域研究（研究領域提案型）

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    Authorship：Principal investigator  Grant type：Scientific research funding

  • 細胞多様性決定要因の網羅解析技術の開発

    2015 - 2018

    科学技術振興費(主要5分野) (文部科学省)

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    Authorship：Principal investigator  Grant type：Contract research

  • 遺伝子核内配置－転写同時ライブイメージングを利用した多能性幹細胞不均一性の解明

    Grant number：15K18467  2015 - 2017

    科学研究費助成事業  若手研究(A,B)

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    Authorship：Principal investigator  Grant type：Scientific research funding

  • Stochastic promoter activation affects Nanog expression variability in mouse embryonic stem cells

    2015

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    Authorship：Principal investigator  Grant type：On-campus funds, funds, etc.

  • 細胞核内ライブイメージングを利用した多能性幹細胞不均一性の解明

    2015

    「発生医学の共同研究拠点」(熊本大学)共同研究課題

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    Authorship：Principal investigator  Grant type：On-campus funds, funds, etc.

  • ゲノム編集法を用いた放射線感受性の個人差を規定する遺伝的素因の同定

    2014 - 2016

    科学研究費助成事業 

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    Grant type：Competitive funding other than Grants-in-Aid for Scientific Research

  • 新規な一塩基置換導入法の確立と疾患関連SNPの機能解析への応用

    Grant number：25830138  2013 - 2014

    科学研究費助成事業  若手研究(A,B)

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    Authorship：Principal investigator  Grant type：Scientific research funding

  • 革新的一塩基置換導入法の確立とヒト遺伝病解析への応用

    2013

    平成25年度笹川科学研究助成

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    Authorship：Principal investigator  Grant type：On-campus funds, funds, etc.

  • 高効率一塩基置換法の確立

    2013

    H24年度第２回「産学連携若手研究者支援プログラム」

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    Authorship：Principal investigator  Grant type：On-campus funds, funds, etc.

  • 発光イメージングを利用したDNA修復経路の破綻による神経症状発症機構の解明

    Grant number：11J02843  2011 - 2013

    日本学術振興会  科学研究費助成事業  特別研究員奨励費

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    Authorship：Principal investigator  Grant type：Scientific research funding

  • 多細胞生物における細胞間の遺伝子発現のゆらぎとその制御に関する研究

    Grant number：09J01990  2009 - 2010

    日本学術振興会  科学研究費助成事業  特別研究員奨励費

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    Authorship：Principal investigator  Grant type：Scientific research funding

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Class subject

  • 生命医科学II

    2023.4 - 2023.9   First semester

  • Medical Life Sciences Ⅱ

    2024.4 - 2024.6   Spring quarter

  • 生命医科学Ⅱ

    2024.4 - 2024.6   Spring quarter

Visiting, concurrent, or part-time lecturers at other universities, institutions, etc.

  • 2023  広島大学・ゲノム編集イノベーションセンター  Classification:Affiliate faculty  Domestic/International Classification:Japan 

Social Activities

  • 日本医学会連合 ゲノム編集解説ウェブサイト 執筆協力

    日本医学会連合  2023.6

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    Audience： General,　Scientific,　Company,　Civic organization,　Governmental agency

  • 日本医学会連合 ゲノム編集解説ウェブサイト 執筆協力

    Role(s)： Media coverage,　Informant,　Contribution

    日本医学会連合  2023.6

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    Audience： Junior students,　High school students,　College students,　Graduate students,　Teachers,　Guardians,　Researchesrs,　General,　Media

    Type：Internet

    researchmap

  • 「みんな違ってそれでいい：細胞の個性を考える」質問対応・研究室訪問

    Role(s)： Lecturer

    フロムページ  夢ナビライブ2022 in Summer  オンライン  2022.7

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    Type：Citizen’s meeting/Assembly

    researchmap

  • 「みんな違ってそれでいい：細胞の個性を考える」質問対応・研究室訪問

    フロムページ  オンライン  2022.7

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    Audience： General,　Scientific,　Company,　Civic organization,　Governmental agency

  • GET TO KNOW OUR DPs & DRs

    Role(s)： Media coverage

    Hiroshima University  Hiroshima University Update  2022.4

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    Type：Internet

    researchmap

  • GET TO KNOW OUR DPs & DRs

    Hiroshima University  2022.4

    　More details

    Audience： General,　Scientific,　Company,　Civic organization,　Governmental agency

  • みんな違ってそれでいい：細胞の個性を考える

    Role(s)： Lecturer

    フロムページ  夢ナビ 講義動画  2021.11

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    Type：Visiting lecture

    researchmap

  • みんな違ってそれでいい：細胞の個性を考える

    フロムページ  2021.11

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    Audience： General,　Scientific,　Company,　Civic organization,　Governmental agency

  • ゲノム編集技術

    Role(s)： Lecturer

    広島大学  広島市立広島中等教育学校 出張授業  オンライン  2021.9

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    Type：Visiting lecture

    researchmap

  • ゲノム編集技術

    広島大学  オンライン  2021.9

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    Audience： General,　Scientific,　Company,　Civic organization,　Governmental agency

  • Scientists identify the molecules responsible for transcriptional bursting

    Role(s)： Informant

    RIKEN  RIKEN  2020.9

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    Type：Internet

    researchmap

  • Scientists identify the molecules responsible for transcriptional bursting

    RIKEN  2020.9

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    Audience： General,　Scientific,　Company,　Civic organization,　Governmental agency

  • Simultaneous live imaging of a specific gene's transcription, dynamics

    Role(s)： Informant

    Proceedings of the National Academy of Sciences of the United States of America  Proceedings of the National Academy of Sciences of the United States of America  2014.1

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    Type：Newspaper, magazine

    researchmap

  • Simultaneous live imaging of a specific gene's transcription, dynamics

    Proceedings of the National Academy of Sciences of the United States of America  2014.1

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    Audience： General,　Scientific,　Company,　Civic organization,　Governmental agency

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Media Coverage

  • 細胞多様化の一因明らかに 再生医療へ応用期待

    中国新聞(朝刊)  2020.8

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    細胞多様化の一因明らかに 再生医療へ応用期待

  • ゲノム編集と生細胞イメージング技術による1細胞・1分子生物学の発展

    ゲノム編集学会メールマガジン 第10号 (2019.12)  2019.12

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    ゲノム編集と生細胞イメージング技術による1細胞・1分子生物学の発展

  • Math shows why animals can see at night

    ScienceDaily  2019.9

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    Math shows why animals can see at night

  • 遺伝子の核内動態と細胞の個性をひもとく

    日経バイオテク  2015.11

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    遺伝子の核内動態と細胞の個性をひもとく

  • Live Imaging of a Specific Gene's Transcription and Dynamics

    MDT Medical Design Technology  2015.6

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    Live Imaging of a Specific Gene's Transcription and Dynamics

  • 広島大が標的遺伝子の細胞内位置と活性を同時に可視化するROLEX技術、CRISPR/dCas9を活用

    日経バイオテクONLINE  2015.6

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    広島大が標的遺伝子の細胞内位置と活性を同時に可視化するROLEX技術、CRISPR/dCas9を活用

  • Simultaneous live imaging of a specific gene's transcription and dynamics

    Eurekalert!  2015.6

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    Simultaneous live imaging of a specific gene's transcription and dynamics

  • Simultaneous live imaging of a specific gene's transcription and dynamics

    Phys.org  2015.6

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    Simultaneous live imaging of a specific gene's transcription and dynamics

  • マウス胚性幹細胞における確率的なプロモーター活性化がNanog発現のばらつきに影響を与える

    2014.11

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    マウス胚性幹細胞における確率的なプロモーター活性化がNanog発現のばらつきに影響を与える

  • 【山本研ゲノム編集アップデイト(3)】Wageningen大、DNAガイドを介した新規DNA切断現象を原核生物で発見

    日経バイオテク  2014.3

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    【山本研ゲノム編集アップデイト(3)】Wageningen大、DNAガイドを介した新規DNA切断現象を原核生物で発見

  • 広島大と理研が人工ヌクレアーゼZFNで遺伝子挿入、ウニ初期胚1細胞の遺伝子発現を可視化

    日経バイオテクONLINE  2012.6

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    広島大と理研が人工ヌクレアーゼZFNで遺伝子挿入、ウニ初期胚1細胞の遺伝子発現を可視化

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