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Author Details

Shuichi Onami
RIKEN Center for Biosystems Dynamics Research
1996
44
12
PMIDPaper TitleJournal TitlePublished Year
36865282OME-Zarr: a cloud-optimized bioimaging file format with international community support.bioRxiv2023
37609947Single-molecule tracking of Nanog and Oct4 in living mouse embryonic stem cells uncovers a feedback mechanism of pluripotency maintenance.EMBO J2023
37026092Systematic analysis of cell morphodynamics in <i>C. elegans</i> early embryogenesis.Front Bioinform2023
37018405Condensed but liquid-like domain organization of active chromatin regions in living human cells.Sci Adv2023
36865282OME-Zarr: a cloud-optimized bioimaging file format with international community support.bioRxiv2023
37295434Centromere/kinetochore is assembled through CENP-C oligomerization.Mol Cell2023
37609947Single-molecule tracking of Nanog and Oct4 in living mouse embryonic stem cells uncovers a feedback mechanism of pluripotency maintenance.EMBO J2023
37026092Systematic analysis of cell morphodynamics in <i>C. elegans</i> early embryogenesis.Front Bioinform2023
37018405Condensed but liquid-like domain organization of active chromatin regions in living human cells.Sci Adv2023
37295434Centromere/kinetochore is assembled through CENP-C oligomerization.Mol Cell2023
36087002PHi-C2: interpreting Hi-C data as the dynamic 3D genome state.Bioinformatics2022
35658044Single-nucleosome imaging reveals steady-state motion of interphase chromatin in living human cells.Sci Adv2022
36087002PHi-C2: interpreting Hi-C data as the dynamic 3D genome state.Bioinformatics2022
35430776The PAF1 complex cell autonomously promotes oogenesis in Caenorhabditis elegans.Genes Cells2022
35430776The PAF1 complex cell autonomously promotes oogenesis in Caenorhabditis elegans.Genes Cells2022
35658044Single-nucleosome imaging reveals steady-state motion of interphase chromatin in living human cells.Sci Adv2022
34021280REMBI: Recommended Metadata for Biological Images-enabling reuse of microscopy data in biology.Nat Methods2021
35474959NeuroGT: A brain atlas of neurogenic tagging CreER drivers for birthdate-based classification and manipulation of mouse neurons.Cell Rep Methods2021
33644705<i>C. elegans</i> spermatozoa lacking <i>spe-45</i> are incapable of fusing with the oocyte plasma membrane.MicroPubl Biol2021
34214188QUAREP-LiMi: A community-driven initiative to establish guidelines for quality assessment and reproducibility for instruments and images in light microscopy.J Microsc2021
33948027A global view of standards for open image data formats and repositories.Nat Methods2021
33596821Statistical image processing quantifies the changes in cytoplasmic texture associated with aging in Caenorhabditis elegans oocytes.BMC Bioinformatics2021
34021280REMBI: Recommended Metadata for Biological Images-enabling reuse of microscopy data in biology.Nat Methods2021
34614676Improvement in image quality via the pseudo confocal effect in multidirectional digital scanned laser light-sheet microscopy.Opt Express2021
35474959NeuroGT: A brain atlas of neurogenic tagging CreER drivers for birthdate-based classification and manipulation of mouse neurons.Cell Rep Methods2021
33596821Statistical image processing quantifies the changes in cytoplasmic texture associated with aging in Caenorhabditis elegans oocytes.BMC Bioinformatics2021
33644705<i>C. elegans</i> spermatozoa lacking <i>spe-45</i> are incapable of fusing with the oocyte plasma membrane.MicroPubl Biol2021
34614676Improvement in image quality via the pseudo confocal effect in multidirectional digital scanned laser light-sheet microscopy.Opt Express2021
34214188QUAREP-LiMi: A community-driven initiative to establish guidelines for quality assessment and reproducibility for instruments and images in light microscopy.J Microsc2021
33948027A global view of standards for open image data formats and repositories.Nat Methods2021
32191860Microrheology for Hi-C Data Reveals the Spectrum of the Dynamic 3D Genome Organization.Biophys J2020
32191860Microrheology for Hi-C Data Reveals the Spectrum of the Dynamic 3D Genome Organization.Biophys J2020
33575580PHi-C: deciphering Hi-C data into polymer dynamics.NAR Genom Bioinform2020
32952939Toward understanding the dynamic state of 3D genome.Comput Struct Biotechnol J2020
32785254BD5: An open HDF5-based data format to represent quantitative biological dynamics data.PLoS One2020
33575580PHi-C: deciphering Hi-C data into polymer dynamics.NAR Genom Bioinform2020
32785254BD5: An open HDF5-based data format to represent quantitative biological dynamics data.PLoS One2020
32952939Toward understanding the dynamic state of 3D genome.Comput Struct Biotechnol J2020
28629355Biologically constrained optimization based cell membrane segmentation in C. elegans embryos.BMC Bioinformatics2017
34541214<i>In vivo</i> Live Imaging of Calcium Waves and Other Cellular Processes during Fertilization in <i>Caenorhabditis elegans</i>.Bio Protoc2017
28629355Biologically constrained optimization based cell membrane segmentation in C. elegans embryos.BMC Bioinformatics2017
28177654Phenotype Analysis Method for Identification of Gene Functions Involved in Asymmetric Division of Caenorhabditis elegans.J Comput Biol2017
34541214<i>In vivo</i> Live Imaging of Calcium Waves and Other Cellular Processes during Fertilization in <i>Caenorhabditis elegans</i>.Bio Protoc2017
28177654Phenotype Analysis Method for Identification of Gene Functions Involved in Asymmetric Division of Caenorhabditis elegans.J Comput Biol2017
27068469The Sperm TRP-3 Channel Mediates the Onset of a Ca(2+) Wave in the Fertilized C. elegans Oocyte.Cell Rep2016
27068469The Sperm TRP-3 Channel Mediates the Onset of a Ca(2+) Wave in the Fertilized C. elegans Oocyte.Cell Rep2016
27412095SSBD: a database of quantitative data of spatiotemporal dynamics of biological phenomena.Bioinformatics2016
27412095SSBD: a database of quantitative data of spatiotemporal dynamics of biological phenomena.Bioinformatics2016
25414366Biological Dynamics Markup Language (BDML): an open format for representing quantitative biological dynamics data.Bioinformatics2015
25414366Biological Dynamics Markup Language (BDML): an open format for representing quantitative biological dynamics data.Bioinformatics2015
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Collaborators

Koji Kyoda
RIKEN Center for Biosystems Dynamics Research
Co-authored papers 10
Hiroaki Kitano
Co-authored papers 8
Jason R Swedlow
University of Dundee
Co-authored papers 4
Josh Moore
University of Dundee
Co-authored papers 3
Caterina Strambio-De-Castillia
Co-authored papers 2
Gabriel G Martins
Co-authored papers 2
Omer Ali Bayraktar
Wellcome Sanger Institute
Co-authored papers 2
Satoru Miyano
Tokyo Medical and Dental University
Co-authored papers 2
Ugis Sarkans
Co-authored papers 2
Perrine Paul-Gilloteaux
Co-authored papers 2
Claire M Brown
Co-authored papers 2
Pasi Kankaanpää
Co-authored papers 2
Christian Tischer
Center for Bioimage Analysis
Co-authored papers 2
Antje Keppler
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Giovanni Palla
Institute of Computational Biology
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Mark Kittisopikul
Howard Hughes Medical Institute
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Stephan Wagner-Conrad
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Alexandra L Palmer
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Markku Saari
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Bugra ??zdemir
Signaling Research Centers CIBSS and BIOSS, University of Freiburg
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Petr Walczysko
University of Dundee
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Peter Hemmerich
Co-authored papers 1
Andrii Iudin
Co-authored papers 1
Terrence F Meehan
European Bioinformatics Institute
Co-authored papers 1
Melissa Linkert
Glencoe Software Inc.
Co-authored papers 1
Khaled Mohamed
University of Dundee
Co-authored papers 1
Hannes Beckert
Co-authored papers 1
Merlin Lange
Co-authored papers 1
Lucas Pelkmans
University of Zurich
Co-authored papers 1
Maria Harkiolaki
Co-authored papers 1
Release 1.2